Modules
https://docs.rc.uab.edu/
Please use the new documentation url https://docs.rc.uab.edu/ for all Research Computing documentation needs.
As a result of this move, we have deprecated use of this wiki for documentation. We are providing read-only access to the content to facilitate migration of bookmarks and to serve as an historical record. All content updates should be made at the new documentation site. The original wiki will not receive further updates.
Thank you,
The Research Computing Team
This page shows a list of installed modules on the Cheaha research computing system. If you don't find a particular package listed on this page, please send a request to cheaha support to request the software.
This list is not exhaustive and may not reflect the accurate current versions of the different software installed on the system. Please see the output of the module avail command for the official list of software modules installed on Cheaha.
Contents: | A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z
A
| Name | Latest version |
|---|---|
| acml | open64/mp/fma4/5.3.1 |
| anvio | 3 |
| AFNI | 18.2.05-intel-2016a-Python-2.7.11 |
| ANTs | 2.1.0rc3-foss-2016a |
| APBS | 1.4-linux-static-x86_64 |
| ASHS | rev103_20140612 |
| ATK | 2.26.0-intel-2017a |
| ATLAS | 3.10.1-gompi-1.5.12-LAPACK-3.4.2 |
| Amber | 14-intel-2016a-AmberTools-15-patchlevel-13-13 |
| Anaconda2 | 4.2.0 |
| Aspera-Connect | 3.6.1 |
| AutoDock_Vina | 1.1.2_linux_x86 |
| Autoconf | 2.69-GCCcore-6.4.0 |
| Automake | 1.15.1-GCCcore-6.4.0 |
| Autotools | 20170619-GCCcore-6.4.0 |
| annovar | 2016Feb01-foss-2015b-Perl-5.22.1 |
| ant | 1.9.7-Java-1.8.0_92 |
| ABySS | 2.0.2-foss-2016a |
| Anaconda3 | 5.2.0 |
| aaf-phylogeny | 20160831 |
B
| Name | Latest version |
|---|---|
| blacs | openmpi/open64/64/1.1patch03 |
| blas | open64/64/3.7.0 |
| bonnie++ | 1.97.1 |
| BrainSuite | 15b |
| basespace-cli | 0.8.12 |
| brainstorm | 180709 |
| BEDTools | 2.26.0-foss-2016a |
| BSMAP | 2.90-foss-2016a |
| BWA | 0.7.13-intel-2016a |
| BXH_XCEDE_TOOLS | 1.11.1 |
| BamTools | 2.4.0-intel-2016a |
| Bismark | 0.19.0-foss-2016a |
| Bison | 3.0.4-intel-2017a |
| Boost | 1.51.0-goolf-1.7.20 |
| Bowtie | 1.1.2-foss-2016a |
| Bowtie2 | 2.3.3-intel-2017a |
| BreakDancer | 1.4.5-intel-2016a |
| binutils | 2.28-GCCcore-6.4.0 |
| bzip2 | 1.0.6-intel-2016b |
| BCFtools | 1.6-intel-2016a |
| BLAST+ | 2.6.0-intel-2017a-Python-2.7.13 |
| Biopython | 1.70-intel-2017a-Python-3.6.1 |
| bioitx | jupyter |
C
| Name | Latest version |
|---|---|
| cluster-tools | 8.0 |
| cluster-tools-dell | 8.0 |
| cuda75 | toolkit/7.5.18 |
| cuda80 | gdk/352.79 |
| cuda91 | toolkit/9.1.85 |
| cmg | 2016.101.GU |
| cytoscape | 2.8.2 |
| cellranger | 2.1.1 |
| crossmap | 0.2.8 |
| CBLAS | 20110120-foss-2016b |
| CD-HIT | 4.6.8-intel-2017a |
| CHARMM | 40b1-intel-2016a |
| CHASE | v1 |
| CMake | 3.10.2-GCCcore-6.4.0 |
| CUDA | 8.0.44 |
| Circos | 0.69-5-intel-2016a-Perl-5.18.2 |
| ConnectomeWorkbench | 1.3.1 |
| Cufflinks | 2.2.1-goolf-1.7.20 |
| cURL | 7.44.0-intel-2015b |
| cairo | 1.14.6-foss-2016a-GLib-2.48.0 |
| configurable-http-proxy | 1.3.0-foss-2016a-nodejs-4.4.7 |
| cutadapt | 1.12 |
| CTFFIND | 4.1.8-intel-2016a |
| cuDNN | 6.0-CUDA-8.0.61 |
D
| Name | Latest version |
|---|---|
| delly | 0.7.6 |
| dsistudio | dsistudio-20151020 |
| detonate | 1.11 |
| DBus | 1.11.20-intel-2017a |
| DMTCP | 2.5.0 |
| Doxygen | 1.8.13-GCCcore-6.3.0 |
| damageproto | 1.2.1-intel-2016a |
| dbus-glib | 0.108-intel-2017a |
| DB | 6.2.32-intel-2017a |
| dvctools | 0.2 |
E
| Name | Latest version |
|---|---|
| EMAN2 | 2.2 |
| EIGENSOFT | 6.1.4-foss-2016b |
| ENT | 1.0.2 |
| EPACTS | 3.2.6-foss-2016b |
| EasyBuild | 3.6.2 |
| Eigen | 3.2.8-intel-2016a |
| Elk | 4.3.6-intel-2016a |
| Emacs | 24.5-GCC-4.9.3-2.25 |
| entrypoints | 0.2.2-foss-2016a-Python-3.5.1 |
| eudev | 3.1.5-intel-2016a |
| expat | 2.2.5-GCCcore-6.4.0 |
| EDGE_pro | 1.3.1 |
| exonerate | 2.2.0 |
F
| Name | Latest version |
|---|---|
| freeipmi | 1.5.5 |
| fftw2 | openmpi/open64/64/float/2.1.5 |
| fftw3 | openmpi/open64/64/3.3.6 |
| FSL | 5.0.9-Modified-fsl_sub |
| fdtd | 8.17.1157-1 |
| freesurfer | Dev/10_29_16 |
| FASTX-Toolkit | 0.0.14-intel-2015b |
| FFTW | 3.3.5-intel-2017a |
| FIAT | 1.6.0-intel-2015b-Python-2.7.11 |
| FLTK | 1.3.3-intel-2016a |
| FLUENT | 19.1 |
| FSL | 5.0.10-intel-2017a |
| FastQC | 0.11.7-Java-1.8.0_74 |
| FastTree | 2.1.9-goolf-1.4.10 |
| FreeSurfer | 6.0.0-centos6_x86_64 |
| fastPHASE | 1.4.8 |
| file | 5.28-foss-2016b |
| fixesproto | 5.0-intel-2016a |
| flex | 2.6.0-intel-2017a |
| fontconfig | 2.12.6-GCCcore-6.4.0 |
| fontsproto | 2.1.3-intel-2016a |
| foss | 2018a |
| freeglut | 3.0.0-intel-2017a |
| freetype | 2.9-GCCcore-6.4.0 |
| FastQ_Screen | 0.11.2 |
| Firefox | 44.0.2 |
| FreeXL | 1.0.2-intel-2016a |
| freebayes | 1.1.0-goolf-1.7.20_39e5e4b |
| frealign | 9.11-intel-2016a-avx-mp |
| FFmpeg | 3.3.1-foss-2016b |
G
| Name | Latest version |
|---|---|
| gcc | 6.3.0 |
| gdb | 7.12.1 |
| globalarrays | openmpi/open64/64/5.5 |
| GEMMA | GEMMA_Rec |
| gromacs-intel | 2018.1 |
| GeneTorrent | GeneTorrent_4.0.0-9 |
| GATK | 3.7-Java-1.8.0_92 |
| GC3Pie | 2.4.2 |
| GCC | 4.4.7 |
| GCCcore | 6.4.0 |
| GD | 2.52-intel-2016a-Perl-5.18.2 |
| GDAL | 2.1.3-intel-2016a-Python-2.7.12 |
| GLib | 2.48.0-foss-2016a |
| GMP | 4.3.2 |
| GNU | 4.9.3-2.25 |
| GObject-Introspection | 1.48.0-foss-2016a |
| GROMACS | 5.0.5-intel-2015b-hybrid |
| GSL | 2.3-foss-2016b |
| GTK+ | 2.24.31-intel-2017a |
| Gdk-Pixbuf | 2.36.10-intel-2017a |
| Ghostscript | 9.19-intel-2016a |
| gawk | 4.0.2-goolf-1.4.10 |
| gcccuda | 2017.01 |
| gettext | 0.19.7-foss-2016a |
| glproto | 1.4.17-intel-2016a |
| gnuplot | 5.0.3-intel-2016a |
| gnutls | 3.4.7-GNU-4.9.3-2.25 |
| gompi | 2018a |
| goolf | 1.7.20 |
| gperf | 3.1-GCCcore-6.4.0 |
| grep | 2.15-goolf-1.4.10 |
| groff | 1.22.2-foss-2016b |
| gtool | 0.7.5_linux_x86_64 |
| guile | 1.8.8-GNU-4.9.3-2.25 |
| GEOS | 3.6.1-intel-2016a-Python-2.7.12 |
| GStreamer | 1.8.3-foss-2016a |
| GConf | 3.2.6-intel-2017a |
| GST-plugins-base | 0.10.36-intel-2017a |
| gdc-client | 1.3.0-intel-2016a-Python-2.7.12 |
| Gctf | 1.06 |
H
| Name | Latest version |
|---|---|
| hdf5 | 1.10.0 |
| hdf5_18 | 1.8.18 |
| hpl | 2.2 |
| hwloc | 1.11.3-intel-2016a |
| hydrasv | 0.5.3 |
| HOMER | 4.9 |
| HAPGEN2 | 2.2.0 |
| HDF5 | 1.10.1-foss-2018a |
| HISAT2 | 2.1.0-foss-2016b |
| HPL | 2.2-intel-2016a |
| HTSeq | 0.6.1p1-intel-2015b-Python-2.7.8 |
| HTSlib | 1.4.1-intel-2017a |
| HarfBuzz | 1.5.1-intel-2017a |
| Hypre | 2.10.1-intel-2015b |
| h5py | 2.5.0-intel-2016a-Python-2.7.11-HDF5-1.8.16 |
| help2man | 1.47.4-GCCcore-6.4.0 |
| HMMER | 3.1b2-intel-2016a |
I
| Name | Latest version |
|---|---|
| ipmitool | 1.8.18 |
| intel-cluster-checker | 2.2.2 |
| intel-cluster-runtime | mic/2017.0 |
| intel-tbb-oss | intel64/2017_20170807oss |
| intel | 2016b |
| iozone | 3_465 |
| intel | compiler/64/ps_2016/2016.0.047 |
| IMPUTE2 | 2.3.2_x86_64_static |
| IPython | 5.0.0-foss-2016a-Python-3.5.1 |
| ImageMagick | 7.0.2-5-intel-2016a |
| icc | 2016.3.210-GCC-5.4.0-2.26 |
| iccifort | 2016.3.210-GCC-5.4.0-2.26 |
| ifort | 2016.3.210-GCC-5.4.0-2.26 |
| iimpi | 2016b |
| imkl | 11.3.3.210-iimpi-2016b |
| impi | 5.1.3.181-iccifort-2016.3.210-GCC-5.4.0-2.26 |
| inputproto | 2.3.1-intel-2016a |
| intltool | 0.51.0-GCCcore-6.4.0-Perl-5.26.1 |
| ITK | 4.12.2-foss-2016b-Python-2.7.12 |
J
| Name | Latest version |
|---|---|
| jspr | 2017-7-20 |
| JAGS | 3.4.0-goolf-1.4.10 |
| JUnit | 4.12-Java-1.8.0_92 |
| JasPer | 1.900.1-foss-2016b |
| Java | 1.8.0_152 |
| Jellyfish | 2.2.6-foss-2016b |
| jupyterhub | 0.6.1-foss-2016a-Python-3.5.1 |
K
| Name | Latest version |
|---|---|
| Kent_tools | 340 |
| Kerberos_V5 | 1.12.2-intel-2015b |
| kbproto | 1.0.7-intel-2016a |
| KING | 2.1.2-foss-2016a |
| kallisto | 0.43.1-intel-2017a |
L
| Name | Latest version |
|---|---|
| lua | 5.3.4 |
| lapack | open64/64/3.7.0 |
| lstc | lsdyna |
| lumpy | 0.2.13 |
| lcmodel | 6.3 |
| LAPACK | 3.4.2-gompi-1.5.12 |
| LLVM | 5.0.1-GCCcore-6.4.0 |
| LeadIT | 2.1.9 |
| LibTIFF | 4.0.6-intel-2016b |
| LittleCMS | 2.7-intel-2016a |
| Lmod | 6.3-GCC-4.8.4 |
| LocusZoom | 1.3-goolf-1.7.20 |
| Lua | 5.1.4-8-GCC-4.8.4 |
| lftp | 4.6.4-GNU-4.9.3-2.25 |
| libGLU | 9.0.0-intel-2017a |
| libICE | 1.0.9-intel-2016a |
| libSM | 1.2.2-intel-2016a |
| libX11 | 1.6.3-intel-2016a |
| libXau | 1.0.8-intel-2016a |
| libXcursor | 1.1.14-intel-2016a |
| libXdamage | 1.1.4-intel-2016a |
| libXdmcp | 1.1.2-intel-2016a |
| libXext | 1.3.3-intel-2016a |
| libXfixes | 5.0.1-intel-2016a |
| libXfont | 1.5.1-intel-2016a-freetype-2.6.3 |
| libXft | 2.3.2-intel-2016a |
| libXi | 1.7.6-intel-2016a |
| libXinerama | 1.1.3-intel-2016a |
| libXmu | 1.1.2-intel-2016a |
| libXp | 1.0.3-intel-2016a |
| libXpm | 3.5.11-intel-2016a |
| libXrandr | 1.5.0-intel-2016a |
| libXrender | 0.9.9-intel-2016a |
| libXt | 1.1.5-intel-2016a |
| libcerf | 1.4-intel-2016a |
| libdrm | 2.4.88-GCCcore-6.4.0 |
| libffi | 3.2.1-intel-2016b |
| libfontenc | 1.1.3-intel-2016a |
| libgcrypt | 1.6.5-intel-2017a |
| libgd | 2.2.4-intel-2017a |
| libglade | 2.6.4-intel-2016a |
| libgpg-error | 1.21-intel-2017a |
| libgtextutils | 0.6.1-intel-2015b |
| libidn | 1.32-GNU-4.9.3-2.25 |
| libjpeg-turbo | 1.5.0-intel-2016b |
| libpciaccess | 0.13.4-intel-2016a |
| libpng | 1.6.34-GCCcore-6.4.0 |
| libpthread-stubs | 0.3-intel-2016a |
| libreadline | 7.0-GCCcore-6.4.0 |
| libsodium | 1.0.8-foss-2016a |
| libtasn1 | 4.7-GNU-4.9.3-2.25 |
| libtool | 2.4.6-GCCcore-6.4.0 |
| libunistring | 0.9.3-GNU-4.9.3-2.25 |
| libxc | 2.2.3-intel-2016a |
| libxcb | 1.8-foss-2016a-Python-2.7.3 |
| libxkbcommon | 0.6.1-intel-2016a |
| libxml2 | 2.9.7-GCCcore-6.4.0 |
| libxslt | 1.1.29-intel-2017a |
| libsndfile | 1.0.28-intel-2017a |
| libyaml | 0.1.7-intel-2016a |
| libspatialindex | 1.8.5-intel-2016a |
| libspatialite | 4.3.0a-intel-2016a |
| LoFreq | 2.1.2-intel-2017a-Python-2.7.12 |
| LibUUID | 1.0.3-foss-2016a |
| LAME | 3.99.5-foss-2016b |
| LZO | 2.10-foss-2016b |
M
| Name | Latest version |
|---|---|
| mpich | ge/open64/64/3.2 |
| mpiexec | 0.84_432 |
| mvapich | open64/64/1.2rc1 |
| mvapich2 | open64/64/2.2rc1 |
| MEGA2 | 4.9.1 |
| Mathematica | 10.3 |
| manta | 1.0.3 |
| mat | test |
| matlab | R2017b |
| metasv | 0.5.2 |
| mriconvert | 2.0.8 |
| maskface | 12272017 |
| M4 | 1.4.18-GCCcore-6.4.0 |
| MACH | 1.0.18 |
| MACS | 1.4.2-1-goolf-1.7.20-Python-2.7.5 |
| METIS | 5.1.0-intel-2015b |
| MOSAIK | 2.2.28-intel-2016a-20140425-24cf06 |
| MPICH | 3.0.4-GCC-4.8.1 |
| MRIcroGL | 09302016 |
| MRIcron | 06_22_15 |
| MRtrix | 0.3.16-intel-2016a-Python-2.7.11 |
| MUSCLE | 3.8.31-intel-2016a |
| MVAPICH2 | 2.2b-GCC-4.9.3-2.25 |
| Mako | 1.0.6-intel-2017a-Python-2.7.13 |
| Maq | 0.7.0 |
| Mathematica | 11.0.1 |
| Maven | 3.3.9 |
| Mercurial | 3.2.4-foss-2015b-Python-2.7.9 |
| Mesa | 17.0.2-intel-2017a |
| Minimac2 | 2014.9.15-intel-2015b |
| Minimac3 | 1.0.10-intel-2015b |
| makedepend | 1.0.5-intel-2016a |
| matplotlib | 1.5.1-foss-2016a-Python-2.7.11 |
| motif | 2.3.7-intel-2016a |
| MACS2 | 2.1.1.20160309-foss-2016a-Python-2.7.11 |
| MEME | 4.12.0-foss-2016a |
| MultiQC | 0.8~ |
| Mono | 5.2.0.224-intel-2017a |
| MaSuRCA | 3.2.6-foss-2018a |
| minimap2 | 2.0rc1-foss-2016b |
| MPFR | 2.4.2 |
| MotionCor2 | 1.0.4 |
N
| Name | Latest version |
|---|---|
| netcdf | open64/64/4.4.0 |
| netperf | 2.7.0 |
| NAMD | 2.12 |
| NASM | 2.12.02-intel-2016b |
| NGS | 1.2.5-foss-2016b |
| ncbi-vdb | 2.7.0-foss-2016b |
| ncurses | 5.9-foss-2016b |
| netCDF-Fortran | 4.4.4-intel-2016a |
| netCDF | 4.4.1.1-intel-2016a |
| nettle | 3.4-foss-2018a |
| nodejs | 4.4.7-foss-2016a |
| numactl | 2.0.11-intel-2016a |
| numpy | 1.10.1-goolf-1.7.20-Python-2.7.11 |
| NLopt | 2.4.2-foss-2016b |
| NiBabel | 2.1.0-intel-2017a-Python-2.7.13 |
| ngmlr | 0.2.6-foss-2016b |
| NCBI-Toolkit | 18.0.0-intel-2017a |
O
| Name | Latest version |
|---|---|
| openmpi | open64/64/1.10.3 |
| open64 | 4.5.2.1 |
| openblas | dynamic/0.2.18 |
| openscenegraph | 3.2.1 |
| OTF | 1.12.4-gompi-1.5.12 |
| OpenBLAS | 0.2.20-GCC-6.4.0-2.28 |
| OpenMPI | 1.10.4-intel-2016a |
| OpenPGM | 5.2.122-intel-2015b |
| OpenSSL | 1.0.2g-GCCcore-4.9.3 |
| OpenMM | 6.3-intel-2016a-Python-2.7.11 |
P
| Name | Latest version |
|---|---|
| puppet | 3.8.4 |
| PCRE | 8.39-intel-2016b |
| PDT | 3.20-goolf-1.7.20 |
| PETSc | 3.6.3-intel-2015b-Python-2.7.11 |
| PGI | 18.5-GCC-6.4.0-2.28 |
| PHASE | 2.1.1 |
| PIL | 1.1.7-intel-2016a-Python-2.7.11 |
| PLINK | 1.90-foss-2016a |
| PROJ | 4.9.3-intel-2016a |
| Pango | 1.40.12-intel-2017a |
| ParMETIS | 4.0.3-intel-2015b |
| Perl | 5.26.1-GCCcore-6.4.0 |
| Pindel | 0.2.5b8-foss-2016b |
| ProbABEL | 0.5.0 |
| PyCairo | 1.10.0-intel-2016a-Python-2.7.11 |
| PyGObject | 2.28.6-intel-2016a-Python-2.7.11 |
| PyGTK | 2.24.0-intel-2016a-Python-2.7.11 |
| PyQt | 4.11.4-intel-2016a-Python-2.7.11 |
| PyZMQ | 15.3.0-foss-2016a-Python-3.5.1-zmq4 |
| Pygments | 2.0.2-intel-2015b-Python-2.7.9 |
| Pysam | 0.9.1.4-foss-2016b-Python-2.7.12 |
| Python | 2.7.14-foss-2018a |
| p11-kit | 0.23.2-GNU-4.9.3-2.25 |
| parallel | 20150822-GCC-4.9.2 |
| path.py | 8.2.1-foss-2016a-Python-3.5.1 |
| perl-app-cpanminus | 1.7039 |
| picard | 2.10.0-Java-1.8.0_74 |
| pixman | 0.32.6-intel-2016a |
| pkg-config | 0.29.2-GCCcore-6.4.0 |
| pkgconfig | 1.1.0-intel-2016a-Python-2.7.11 |
| printproto | 1.0.5-intel-2016a |
| prompt-toolkit | 1.0.3-foss-2016a-Python-3.5.1 |
| pysqlite | 2.6.3-intel-2015b-Python-2.7.9 |
| protobuf | 3.3.0-intel-2017a |
| protobuf-python | 3.3.0-intel-2017a-Python-3.6.1 |
| PyYAML | 3.12-intel-2016a-Python-3.5.1 |
| prodigal | 2.6.2-GCC-4.9.3-binutils-2.25 |
| Pillow | 4.3.0-intel-2017a-Python-2.7.13 |
| p7zip | 9.38.1 |
| patchelf | 0.9-intel-2016a |
Q
| Name | Latest version |
|---|---|
| Qt | 4.8.7-intel-2016a |
| Qt5 | 5.7.0-intel-2016a |
| Qwt | 6.1.3-intel-2016a |
| QwtPolar | 1.1.1-intel-2016a |
| QUAST | 4.6.3-foss-2016a-Python-2.7.11 |
| QIIME | qiime-dependencies |
| QWRAP | QWRAPv3 |
R
| Name | Latest version |
|---|---|
| RStudio | 1.0.44 |
| relion | 2.0_beta |
| R | 3.5.0-intel-2017a-X11-20170314-bare |
| RAxML | 8.1.1-goolf-1.4.10-mt-avx |
| RSeQC | 2.6.3-goolf-1.7.20-Python-2.7.10-R-3.2.1 |
| Ruby | 2.3.3 |
| randrproto | 1.5.0-intel-2016a |
| renderproto | 0.11-intel-2016a |
| requests | 2.7.0-intel-2015b-Python-2.7.9 |
| ResMap | 1.1.4 |
| RELION | 2.1-intel-2016a-CUDA-8.0.44 |
S
| Name | Latest version |
|---|---|
| scalapack | openmpi/gcc/64/2.0.2 |
| sge | 2011.11p1 |
| slurm | 17.02.2 |
| SAS | v9.4 |
| Salmon | 0.7.2 |
| soapsv | 1.3 |
| snakemake | 4.8.0 |
| S.A.G.E. | 6.3 |
| SAMtools | 1.4.1-intel-2017a |
| SCOTCH | 6.0.4-intel-2015b |
| SHRiMP | 2.2.3-goolf-1.4.10 |
| SIP | 4.18-intel-2016a-Python-2.7.11 |
| SOLAR-Eclipse | 8.1.1 |
| SPAdes | 3.12.0-foss-2016b |
| SPPARKS | 07192016-intel-2016a |
| SQLite | 3.21.0-GCCcore-6.4.0 |
| STAR-Fusion | 0.8.0-goolf-1.4.10-Perl-5.16.3 |
| STAR | 2.5.2b~ |
| SWIG | 3.0.12-foss-2018a-Python-2.7.14 |
| Salmon | 0.9.1-foss-2016b-Python-2.7.12 |
| ScaLAPACK | 2.0.2-gompi-2018a-OpenBLAS-0.2.20 |
| ScientificPython | 2.9.4-intel-2015b-Python-2.7.11 |
| Singularity | 2.4.5-GCC-5.4.0-2.26 |
| Spack | 0.10.0 |
| SuiteSparse | 4.4.6-intel-2015b-ParMETIS-4.0.3 |
| Szip | 2.1.1-GCCcore-6.4.0 |
| scipy | 0.17.0-intel-2016a-Python-2.7.11 |
| shapeit | 2.r837.GLIBCv2.12_linux_x86_64 |
| sympy | 0.7.6.1-intel-2015b-Python-2.7.11 |
| SRA-Toolkit | 2.8.2-1-centos_linux64 |
| sparsehash | 2.0.2-foss-2016a |
| Spark | 2.2.0-Hadoop-2.6-Java-1.8.0_144 |
| summovie | 1.0.2 |
| snakemakeslurm | 4.8.0/1~ |
T
| Name | Latest version |
|---|---|
| torque | 6.1.1 |
| tortoise | 3.0.0 |
| transdecoder | 5.3.0 |
| Tar | 1.29-goolf-1.4.10 |
| Tcl | 8.6.7-GCCcore-6.4.0 |
| Tk | 8.6.5-intel-2017a |
| TopHat | 2.1.1-foss-2016a |
| Trim_Galore | 0.4.4-foss-2016b |
| Trimmomatic | 0.36-Java-1.8.0_92 |
| Trinity | 2.2.0-foss-2016a |
| tabix | 0.2.6-intel-2015b |
| tbb | 2017_U5-foss-2016b |
| tcsh | 6.19.00-intel-2016a |
| testpath | 0.3-foss-2016a-Python-3.5.1 |
| texinfo | 4.13a |
| Tensorflow | 1.2.0-intel-2017a-Python-3.6.1 |
| TransDecoder | 5.1.0-intel-2017a-Perl-5.24.1 |
| trim_galore | 0.4.2~ |
U
| Name | Latest version |
|---|---|
| util-linux | 2.31-GCCcore-6.4.0 |
| unblur | 1.0.2 |
V
| Name | Latest version |
|---|---|
| vmd | 1.9.3 |
| VEGAS | 0.8.27 |
| VICUNA | 1.3 |
| VPhaser-2 | 02112013-intel-2016a |
| VTK | 6.3.0-foss-2016b-Python-2.7.12 |
| VCFtools | 0.1.15-intel-2016a-Perl-5.22.1 |
W
| Name | Latest version |
|---|---|
| wcwidth | 0.1.7-foss-2016a-Python-3.5.1 |
| wxPython | 3.0.2.0-intel-2017a-Python-2.7.13 |
| wxWidgets | 3.0.3-intel-2016a |
X
| Name | Latest version |
|---|---|
| xget | xget-public |
| X11 | 20171023-GCCcore-6.4.0 |
| XKeyboardConfig | 2.17-intel-2016a |
| XML-Parser | 2.44_01-GCCcore-6.4.0-Perl-5.26.1 |
| XZ | 5.2.3-GCCcore-6.4.0 |
| xbitmaps | 1.1.1-intel-2016a |
| xcb-proto | 1.7-foss-2016a-Python-2.7.3 |
| xcb-util-image | 0.4.0-intel-2016a |
| xcb-util-keysyms | 0.4.0-intel-2016a |
| xcb-util-renderutil | 0.3.9-intel-2016a |
| xcb-util-wm | 0.4.1-intel-2016a |
| xcb-util | 0.4.0-intel-2016a |
| xextproto | 7.3.0-intel-2016a |
| xf86vidmodeproto | 2.3.1-intel-2016a |
| xineramaproto | 1.2.1-intel-2016a |
| xorg-macros | 1.19.0-intel-2016a |
| xprop | 1.2.2-intel-2017a |
| xproto | 7.0.28-intel-2016a |
| xtrans | 1.3.5-intel-2016a |
| Xerces-C++ | 3.1.2-intel-2015b |
| XQilla | 2.3.2-intel-2015b |
| x264 | 20160614-foss-2016b |
| x265 | 2.4-foss-2016b |
Y
| Name | Latest version |
|---|---|
| Yasm | 1.3.0-foss-2016b |
Z
| Name | Latest version |
|---|---|
| ZeroMQ | 4.1.4-foss-2016a |
| zlib | 1.2.8-intel-2016b |
Software Detail
acml
Available versions: gcc-int64/64/5.3.1, gcc-int64/fma4/5.3.1, gcc-int64/mp/64/5.3.1, gcc-int64/mp/fma4/5.3.1, gcc/64/5.3.1, gcc/fma4/5.3.1, gcc/mp/64/5.3.1, gcc/mp/fma4/5.3.1, open64-int64/64/5.3.1, open64-int64/fma4/5.3.1, open64-int64/mp/64/5.3.1, open64-int64/mp/fma4/5.3.1, open64/64/5.3.1, open64/fma4/5.3.1, open64/mp/64/5.3.1, open64/mp/fma4/5.3.1
Command: module load acml
anvio
Available versions: 3
Command: module load rc/anvio
AFNI
Homepage: http://afni.nimh.nih.gov/
Description: AFNI is a set of C programs for processing, analyzing, and displaying functional MRI (FMRI) data -a technique for mapping human brain activity.
Available versions: 17.1.08-intel-2016a-Python-2.7.11, dev-intel-2016a-Python-2.7.11, linux_openmp_64-goolf-1.7.20-20160616, 18.2.05-intel-2016a-Python-2.7.11
Command: module load AFNI
ANTs
Available versions: 2.1.0rc3-foss-2016a
Command: module load ANTs
APBS
Available versions: 1.4-linux-static-x86_64
Command: module load APBS
ASHS
Available versions: rev103_20140612
Command: module load ASHS
ATK
Homepage: https://developer.gnome.org/ATK/stable/
Description: ATK provides the set of accessibility interfaces that are implemented by othertoolkits and applications. Using the ATK interfaces, accessibility tools havefull access to view and control running applications.
Available versions: 2.18.0-intel-2016a, 2.26.0-intel-2017a
Command: module load ATK
ATLAS
Available versions: 3.10.1-gompi-1.5.12-LAPACK-3.4.2
Command: module load ATLAS
Amber
Available versions: 14-intel-2016a-AmberTools-15-patchlevel-13-13
Command: module load Amber
Anaconda2
Homepage: https://www.continuum.io/anaconda-overview}
Available versions: 4.0.0, 4.2.0
Command: module load Anaconda2
Aspera-Connect
Available versions: 3.6.1
Command: module load Aspera-Connect
AutoDock_Vina
Available versions: 1.1.2_linux_x86
Command: module load AutoDock_Vina
Autoconf
Homepage: http://www.gnu.org/software/autoconf/
Description: Autoconf is an extensible package of M4 macros that produce shell scriptsto automatically configure software source code packages. These scripts canadapt the packages to many kinds of UNIX-like systems without manual userintervention. Autoconf creates a configuration script for a package from atemplate file that lists the operating system features that the package canuse, in the form of M4 macro calls.
Available versions: 2.69, 2.69-GCC-4.8.4, 2.69-GCC-4.9.3-2.25, 2.69-GNU-4.9.3-2.25, 2.69-foss-2016a, 2.69-foss-2016b, 2.69-goolf-1.7.20, 2.69-intel-2015b, 2.69-intel-2016a, 2.69-GCCcore-6.3.0, 2.69-GCC-5.4.0-2.26, 2.69-intel-2017a, 2.69-GCCcore-6.4.0
Command: module load Autoconf
Automake
Homepage: http://www.gnu.org/software/automake/automake.html
Description: Automake: GNU Standards-compliant Makefile generator
Available versions: 1.15, 1.15-GCC-4.8.4, 1.15-GCC-4.9.3-2.25, 1.15-GNU-4.9.3-2.25, 1.15-foss-2016a, 1.15-foss-2016b, 1.15-goolf-1.7.20, 1.15-intel-2015b, 1.15-intel-2016a, 1.15-GCCcore-6.3.0, 1.15-GCC-5.4.0-2.26, 1.15-intel-2017a, 1.15.1-GCCcore-6.4.0
Command: module load Automake
Autotools
Homepage: http://autotools.io
Description: This bundle collect the standard GNU build tools: Autoconf, Automakeand libtool
Available versions: 20150215, 20150215-GCC-4.8.4, 20150215-GCC-4.9.3-2.25, 20150215-GNU-4.9.3-2.25, 20150215-foss-2016a, 20150215-foss-2016b, 20150215-goolf-1.7.20, 20150215-intel-2015b, 20150215-intel-2016a, 20150215-GCCcore-6.3.0, 20150215-GCC-5.4.0-2.26, 20150215-intel-2017a, 20170619-GCCcore-6.4.0
Command: module load Autotools
annovar
Available versions: 2016Feb01-foss-2015b-Perl-5.22.1
Command: module load annovar
ant
Available versions: 1.9.6-Java-1.7.0_80, 1.9.7-Java-1.8.0_92
Command: module load ant
ABySS
Homepage: http://www.bcgsc.ca/platform/bioinfo/software/abyss
Description: Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler
Available versions: 1.9.0-foss-2016a, 2.0.2-foss-2016a
Command: module load ABySS
Anaconda3
Homepage: https://www.continuum.io/anaconda-overview
Description: Built to complement the rich, open source Python community,the Anaconda platform provides an enterprise-ready data analytics platformthat empowers companies to adopt a modern open data science analytics architecture.
Available versions: 4.4.0, 5.0.1, 5.1.0, 5.2.0
Command: module load Anaconda3
aaf-phylogeny
Available versions: 20160831
Command: module load aaf-phylogeny
blacs
Available versions: openmpi/gcc/64/1.1patch03, openmpi/open64/64/1.1patch03
Command: module load blacs
blas
Available versions: gcc/64/3.7.0, open64/64/3.7.0
Command: module load blas
bonnie++
Available versions: 1.97.1
Command: module load bonnie++
BrainSuite
Available versions: 15b
Command: module load rc/BrainSuite
basespace-cli
Available versions: 0.8.12
Command: module load rc/basespace-cli
brainstorm
Available versions: 180709
Command: module load rc/brainstorm
BEDTools
Available versions: 2.26.0-foss-2016a
Command: module load BEDTools
BSMAP
Available versions: 2.90-foss-2016a
Command: module load BSMAP
BWA
Available versions: 0.7.13-intel-2015b, 0.7.13-intel-2016a
Command: module load BWA
BXH_XCEDE_TOOLS
Available versions: 1.11.1
Command: module load BXH_XCEDE_TOOLS
BamTools
Available versions: 2.4.0-goolf-1.7.20, 2.4.0-intel-2016a
Command: module load BamTools
Bismark
Homepage: http://www.bioinformatics.babraham.ac.uk/projects/bismark/
Description: A tool to map bisulfite converted sequence reads anddetermine cytosine methylation states
Available versions: 0.10.1-goolf-1.4.10, 0.18.0-foss-2016a, 0.18.0-goolf-1.4.10, 0.19.0-foss-2016a
Command: module load Bismark
Bison
Homepage: http://www.gnu.org/software/bison
Description: Bison is a general-purpose parser generator that converts an annotated context-free grammarinto a deterministic LR or generalized LR (GLR) parser employing LALR(1) parser tables.
Available versions: 2.7-foss-2016a, 3.0.2-intel-2015b, 3.0.4, 3.0.4-GCC-4.9.3-2.25, 3.0.4-GCC-4.9.3-binutils-2.25, 3.0.4-GCCcore-4.9.3, 3.0.4-GCCcore-5.4.0, 3.0.4-GCCcore-6.3.0, 3.0.4-foss-2016a, 3.0.4-foss-2016b, 3.0.4-goolf-1.7.20, 3.0.4-intel-2015b, 3.0.4-intel-2016a, 3.0.4-GCCcore-6.1.0, 2.7-GCCcore-6.3.0, 2.7, 3.0.4-GCCcore-6.4.0, 3.0.4-intel-2017a
Command: module load Bison
Boost
Homepage: http://www.boost.org/
Description: Boost provides free peer-reviewed portable C++ source libraries.
Available versions: 1.55.0-foss-2016a-Python-2.7.11, 1.55.0-goolf-1.7.20, 1.58.0-intel-2015b-Python-2.7.9, 1.59.0-intel-2015b-Python-2.7.10, 1.59.0-intel-2015b-Python-2.7.11, 1.60.0-foss-2016a, 1.61.0-foss-2016a, 1.61.0-goolf-1.7.20, 1.61.0-intel-2016a, 1.63.0-intel-2017a-Python-2.7.13, 1.63.0-foss-2016b-Python-2.7.12, 1.66.0-foss-2018a, 1.58.0-intel-2017a, 1.51.0-goolf-1.4.10, 1.51.0-foss-2016a, 1.51.0-goolf-1.7.20
Command: module load Boost
Bowtie
Homepage: http://bowtie-bio.sourceforge.net/index.shtml}
Available versions: 1.1.1-goolf-1.4.10, 1.1.2-foss-2016a
Command: module load Bowtie
Bowtie2
Homepage: http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
Description: Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing readsto long reference sequences. It is particularly good at aligning reads of about 50 up to 100s or 1,000sof characters, and particularly good at aligning to relatively long (e.g. mammalian) genomes.Bowtie 2 indexes the genome with an FM Index to keep its memory footprint small: for the human genome,its memory footprint is typically around 3.2 GB. Bowtie 2 supports gapped, local, and paired-end alignment modes.
Available versions: 2.0.2-foss-2016a, 2.0.2-goolf-1.4.10, 2.2.5-goolf-1.7.20, 2.2.6-intel-2015b, 2.2.8-foss-2016a, 2.3.3-intel-2017a
Command: module load Bowtie2
BreakDancer
Available versions: 1.4.5-intel-2016a
Command: module load BreakDancer
binutils
Homepage: http://directory.fsf.org/project/binutils/
Description: binutils: GNU binary utilities
Available versions: 2.25, 2.25-GCC-4.9.3-binutils-2.25, 2.25-GCCcore-4.9.3, 2.26, 2.26-GCCcore-5.4.0, 2.27, 2.27-GCCcore-6.3.0, 2.27-GCCcore-6.1.0, 2.28, 2.28-GCCcore-6.4.0
Command: module load binutils
bzip2
Homepage: http://www.bzip.org/
Description: bzip2 is a freely available, patent free, high-quality data compressor. It typicallycompresses files to within 10% to 15% of the best available techniques (the PPM family of statisticalcompressors), whilst being around twice as fast at compression and six times faster at decompression.
Available versions: 1.0.6-foss-2015b, 1.0.6-foss-2016a, 1.0.6-foss-2016b, 1.0.6-goolf-1.4.10, 1.0.6-goolf-1.7.20, 1.0.6-intel-2015b, 1.0.6-intel-2016a, 1.0.6-GCCcore-6.3.0, 1.0.6, 1.0.6-intel-2017a, 1.0.6-GCCcore-6.4.0, 1.0.6-intel-2016b
Command: module load bzip2
BCFtools
Homepage: http://www.htslib.org/
Description: Samtools is a suite of programs for interacting with high-throughput sequencing data.BCFtools - Reading/writing BCF2/VCF/gVCF files and calling/filtering/summarising SNP and short indel sequencevariants
Available versions: 1.3.1-goolf-1.7.20, 1.6-intel-2016a
Command: module load BCFtools
BLAST+
Homepage: http://blast.ncbi.nlm.nih.gov/
Description: Basic Local Alignment Search Tool, or BLAST, is an algorithmfor comparing primary biological sequence information, such as the amino-acidsequences of different proteins or the nucleotides of DNA sequences.
Available versions: 2.6.0-intel-2017a-Python-2.7.13
Command: module load BLAST+
Biopython
Homepage: http://www.biopython.org
Description: Biopython is a set of freely available tools for biological computation writtenin Python by an international team of developers. It is a distributed collaborative effort todevelop Python libraries and applications which address the needs of current and future work inbioinformatics.
Available versions: 1.70-intel-2017a-Python-3.6.1
Command: module load Biopython
bioitx
Available versions: jupyter
Command: module load bioitx
cluster-tools
Available versions: 8.0
Command: module load cluster-tools
cluster-tools-dell
Available versions: 8.0
Command: module load cluster-tools-dell
cuda75
Available versions: blas/7.5.18, fft/7.5.18, gdk/352.79, nsight/7.5.18, profiler/7.5.18, toolkit/7.5.18
Command: module load cuda75
cuda80
Available versions: blas/8.0.61, fft/8.0.61, nsight/8.0.61, profiler/8.0.61, toolkit/8.0.61, gdk/352.79
Command: module load cuda80
cuda91
Available versions: blas/9.1.85, fft/9.1.85, nsight/9.1.85, profiler/9.1.85, toolkit/9.1.85
Command: module load cuda91
cmg
Available versions: 2012.116.G, 2016.101.GU
Command: module load rc/cmg
cytoscape
Available versions: 2.8.2
Command: module load rc/cytoscape
cellranger
Available versions: 2.1.1
Command: module load rc/cellranger
crossmap
Available versions: 0.2.8
Command: module load rc/crossmap
CBLAS
Available versions: 20110120-foss-2016b
Command: module load CBLAS
CD-HIT
Homepage: http://weizhong-lab.ucsd.edu/cd-hit/
Description: CD-HIT is a very widely used program for clustering andcomparing protein or nucleotide sequences.
Available versions: 4.6.4-foss-2015b-2015-0603, 4.6.6-foss-2016b, 4.6.8-intel-2017a
Command: module load CD-HIT
CHARMM
Available versions: 40b1-intel-2016a
Command: module load CHARMM
CHASE
Available versions: v1
Command: module load CHASE
CMake
Homepage: http://www.cmake.org
Description: CMake, the cross-platform, open-source build system. CMake is a family oftools designed to build, test and package software.
Available versions: 3.0.2-foss-2016a, 3.2.2-intel-2015b, 3.2.3-intel-2015b, 3.3.2-GNU-4.9.3-2.25, 3.3.2-intel-2015b, 3.4.1-foss-2016a, 3.4.1-goolf-1.7.20, 3.4.1-intel-2015b, 3.4.1-intel-2016a, 3.4.3-foss-2016b, 3.4.3-goolf-1.7.20, 3.4.3-intel-2016a, 3.5.1-intel-2016a, 3.5.2-foss-2016a, 3.5.2-foss-2016b, 3.5.2-intel-2015b, 3.5.2-intel-2016a, 3.6.1-foss-2016b, 3.6.2-intel-2016a, 3.7.1-foss-2016b, 3.7.2-intel-2016a, 3.8.1-GCCcore-6.3.0, 3.8.0-GCCcore-6.3.0, 3.7.2-GCCcore-6.3.0, 3.7.2-intel-2017a, 3.6.1-intel-2017a, 3.7.2-foss-2016b, 3.7.1-intel-2016a, 2.8.12-goolf-1.4.10, 2.8.12-intel-2016a, 3.9.1-GCCcore-6.3.0, 3.4.1-foss-2015b, 3.4.1-foss-2016b, 3.9.5-GCCcore-6.4.0, 3.6.2-intel-2017a, 3.5.2-intel-2017a, 3.10.2-GCCcore-6.4.0
Command: module load CMake
CUDA
Homepage: https://developer.nvidia.com/cuda-toolkit
Description: CUDA (formerly Compute Unified Device Architecture) is a parallelcomputing platform and programming model created by NVIDIA and implemented by thegraphics processing units (GPUs) that they produce. CUDA gives developers accessto the virtual instruction set and memory of the parallel computational elements in CUDA GPUs.
Available versions: 7.5.18, 8.0.61_375.26-GCC-5.4.0-2.26, 8.0.61, 8.0.44
Command: module load CUDA
Circos
Available versions: 0.69-5-intel-2016a-Perl-5.18.2
Command: module load Circos
ConnectomeWorkbench
Homepage: http://www.humanconnectome.org/software/connectome-workbench.html
Description: Connectome Workbench is an open-sourcevisualization and discovery tool used to explore data generatedby the Human Connectome Project. The distribution includes wb_view,a GUI-based visualization platform, and wb_command, a command-lineprogram for performing a variety of algorithmic tasks using volume,surface, and grayordinate data.
Available versions: 1.2.2, 1.3.1
Command: module load ConnectomeWorkbench
Cufflinks
Available versions: 2.2.1-foss-2016a, 2.2.1-goolf-1.7.20
Command: module load Cufflinks
cURL
Homepage: http://curl.haxx.se
Description: libcurl is a free and easy-to-use client-side URL transfer library,supporting DICT, FILE, FTP, FTPS, Gopher, HTTP, HTTPS, IMAP, IMAPS, LDAP, LDAPS,POP3, POP3S, RTMP, RTSP, SCP, SFTP, SMTP, SMTPS, Telnet and TFTP. libcurl supportsSSL certificates, HTTP POST, HTTP PUT, FTP uploading, HTTP form based upload,proxies, cookies, user+password authentication (Basic, Digest, NTLM, Negotiate,Kerberos), file transfer resume, http proxy tunneling and more.
Available versions: 7.43.0-foss-2015b, 7.43.0-goolf-1.7.20, 7.47.0-foss-2016a, 7.47.0-intel-2016a, 7.49.1-foss-2016a, 7.49.1-foss-2016b, 7.49.1-intel-2015b, 7.49.1-intel-2016a, 7.53.1-GCCcore-6.3.0, 7.44.0-intel-2015b
Command: module load cURL
cairo
Homepage: http://cairographics.org
Description: Cairo is a 2D graphics library with support for multiple output devices.Currently supported output targets include the X Window System (via both Xlib and XCB), Quartz, Win32, image buffers,PostScript, PDF, and SVG file output. Experimental backends include OpenGL, BeOS, OS/2, and DirectFB
Available versions: 1.14.6-intel-2015b, 1.14.6-intel-2016a, 1.14.6-intel-2016a-GLib-2.48.0, 1.14.8-intel-2017a, 1.14.10-GCCcore-6.3.0, 1.14.6-foss-2016b, 1.14.6-foss-2016b-GLib-2.48.0, 1.14.6-foss-2016a-GLib-2.48.0
Command: module load cairo
configurable-http-proxy
Available versions: 1.3.0-foss-2016a-nodejs-4.4.7
Command: module load configurable-http-proxy
cutadapt
Available versions: 1.14-foss-2016b-Python-2.7.12, 1.9.1-foss-2016b-Python-2.7.12, 1.12
Command: module load cutadapt
CTFFIND
Homepage: http://grigoriefflab.janelia.org/ctf
Description: CTFFIND4 is a program for finding CTFs of electron micrographs.
Available versions: 4.1.8-intel-2016a
Command: module load CTFFIND
cuDNN
Homepage: https://developer.nvidia.com/cudnn
Description: The NVIDIA CUDA Deep Neural Network library (cuDNN) is a GPU-accelerated library of primitives fordeep neural networks.
Available versions: 6.0-CUDA-8.0.61
Command: module load cuDNN
delly
Available versions: 0.7.6
Command: module load rc/delly
dsistudio
Available versions: dsistudio-20151020
Command: module load rc/dsistudio
detonate
Available versions: 1.11
Command: module load rc/detonate
DBus
Homepage: http://dbus.freedesktop.org/doc/dbus-glib
Description: D-Bus is a message bus system, a simple way for applications to talkto one another. In addition to interprocess communication, D-Bus helpscoordinate process lifecycle; it makes it simple and reliable to codea "single instance" application or daemon, and to launch applicationsand daemons on demand when their services are needed.
Available versions: 1.10.8-intel-2016a, 1.11.20-intel-2017a
Command: module load DBus
DMTCP
Available versions: 2.4.5, 2.5.0
Command: module load DMTCP
Doxygen
Homepage: http://www.doxygen.org
Description: Doxygen is a documentation system for C++, C, Java, Objective-C, Python,IDL (Corba and Microsoft flavors), Fortran, VHDL, PHP, C#, and to some extent D.
Available versions: 1.8.11-foss-2016a, 1.8.11-foss-2016b, 1.8.11-intel-2015b, 1.8.11-intel-2016a, 1.8.13-GCCcore-6.3.0
Command: module load Doxygen
damageproto
Available versions: 1.2.1-foss-2016b, 1.2.1-goolf-1.7.20, 1.2.1-intel-2016a
Command: module load damageproto
dbus-glib
Homepage: http://dbus.freedesktop.org/doc/dbus-glib
Description: D-Bus is a message bus system, a simple way for applications to talk to one another.
Available versions: 0.106-intel-2016a, 0.108-intel-2017a
Command: module load dbus-glib
DB
Homepage: http://www.oracle.com/technetwork/products/berkeleydb
Description: Berkeley DB enables the development of custom data management solutions,without the overhead traditionally associated with such custom projects.
Available versions: 6.0.30-foss-2016a, 6.2.32-intel-2017a
Command: module load DB
dvctools
Available versions: 0.2
Command: module load dvctools
EMAN2
Available versions: 2.2
Command: module load rc/EMAN2
EIGENSOFT
Homepage: http://www.hsph.harvard.edu/alkes-price/software/
Description: The EIGENSOFT package combines functionality from our population genetics methods (Patterson et al.2006) and our EIGENSTRAT stratification correction method (Price et al. 2006). The EIGENSTRAT method uses principalcomponents analysis to explicitly model ancestry differences between cases and controls along continuous axes ofvariation; the resulting correction is specific to a candidate marker’s variation in frequency across ancestralpopulations, minimizing spurious associations while maximizing power to detect true associations. The EIGENSOFTpackage has a built-in plotting script and supports multiple file formats and quantitative phenotypes.
Available versions: 6.1.1-goolf-1.7.20, 6.1.4-foss-2016b
Command: module load EIGENSOFT
ENT
Available versions: 1.0.2
Command: module load ENT
EPACTS
Available versions: 3.2.6-foss-2016b
Command: module load EPACTS
EasyBuild
Homepage: https://easybuilders.github.io/easybuild
Description: EasyBuild is a software build and installation frameworkwritten in Python that allows you to install software in a structured,repeatable and robust way.
Available versions: 2.5.0, 2.6.0, 2.7.0, 2.8.0, 2.8.2, 3.0.2, 3.1.2, 3.3.1, 3.5.0, 3.6.2
Command: module load EasyBuild
Eigen
Available versions: 3.2.3-foss-2016a, 3.2.6, 3.2.6-goolf-1.7.20, 3.2.8-intel-2016a
Command: module load Eigen
Elk
Homepage: http://elk.sourceforge.net/}
Available versions: 4.0.15-intel-2016a, 4.3.6-intel-2016a
Command: module load Elk
Emacs
Available versions: 24.5-GCC-4.9.3-2.25
Command: module load Emacs
entrypoints
Available versions: 0.2.2-foss-2016a-Python-3.5.1
Command: module load entrypoints
eudev
Available versions: 3.1.5-goolf-1.7.20, 3.1.5-intel-2016a
Command: module load eudev
expat
Homepage: http://expat.sourceforge.net/
Description: Expat is an XML parser library written in C. It is a stream-oriented parserin which an application registers handlers for things the parser might findin the XML document (like start tags)
Available versions: 2.1.0-foss-2016a, 2.1.0-foss-2016b, 2.1.0-intel-2015b, 2.1.0-intel-2016a, 2.1.1-intel-2016a, 2.2.0-foss-2016a, 2.2.0-foss-2016b, 2.2.0-intel-2015b, 2.2.0-intel-2016a, 2.2.0-GCCcore-6.3.0, 2.2.0-intel-2017a, 2.2.4-GCCcore-6.4.0, 2.1.1-foss-2016b, 2.1.1-foss-2016a, 2.2.0-intel-2016b, 2.1.0-intel-2016b, 2.2.5-GCCcore-6.4.0
Command: module load expat
EDGE_pro
Homepage: http://ccb.jhu.edu/software/EDGE-pro/
Description: EDGE-pro (Estimated Degree of Gene Expression in PROkaryotes)is an efficient software system to estimate gene expression levels inprokaryotic genomes from RNA-seq data. EDGE-pro uses Bowtie2 for alignmentand then estimates expression directly from the alignment results.
Available versions: 1.3.1
Command: module load EDGE_pro
exonerate
Available versions: 2.2.0
Command: module load exonerate
freeipmi
Available versions: 1.5.5
Command: module load freeipmi
fftw2
Available versions: openmpi/gcc/64/double/2.1.5, openmpi/gcc/64/float/2.1.5, openmpi/open64/64/double/2.1.5, openmpi/open64/64/float/2.1.5
Command: module load fftw2
fftw3
Available versions: openmpi/gcc/64/3.3.6, openmpi/open64/64/3.3.6
Command: module load fftw3
FSL
Available versions: 5.0.9-Modified-fsl_sub
Command: module load rc/FSL
fdtd
Available versions: 8.17.1157-1
Command: module load rc/fdtd
freesurfer
Available versions: freesurfer-5.3.0, Dev/10_29_16
Command: module load rc/freesurfer
FASTX-Toolkit
Available versions: 0.0.14-intel-2015b
Command: module load FASTX-Toolkit
FFTW
Homepage: http://www.fftw.org
Description: FFTW is a C subroutine library for computing the discrete Fourier transform (DFT)in one or more dimensions, of arbitrary input size, and of both real and complex data.
Available versions: 3.3.3-gompi-1.4.10, 3.3.4-gompi-1.7.20, 3.3.4-gompi-2015b, 3.3.4-gompi-2016a, 3.3.4-gompi-2016b, 3.3.4-intel-2015b, 3.3.4-intel-2016a, 3.3.5-foss-2016a, 3.3.5-intel-2016a, 3.3.6-intel-2017a, 3.3.7-gompi-2018a, 3.3.5-intel-2017a
Command: module load FFTW
FIAT
Available versions: 1.6.0-intel-2015b-Python-2.7.11
Command: module load FIAT
FLTK
Homepage: http://www.fltk.org
Description: FLTK is a cross-platform C++ GUI toolkit for UNIX/Linux (X11), Microsoft Windows,and MacOS X. FLTK provides modern GUI functionality without the bloat and supports 3D graphics via OpenGLand its built-in GLUT emulation.
Available versions: 1.3.3-intel-2016a
Command: module load FLTK
FLUENT
Description: ANSYS FLUENT software contains the broad physical modeling capabilities neededto model flow, turbulence, heat transfer, and reactions for industrial applications ranging fromair flow over an aircraft wing to combustion in a furnace, from bubble columns to oil platforms,from blood flow to semiconductor manufacturing, and from clean room design to wastewater treatment plants.
Available versions: 18.0, 19.1
Command: module load FLUENT
FSL
Homepage: http://www.fmrib.ox.ac.uk/fsl/
Description: FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data.
Available versions: 5.0.9-centos6_64, 5.0.10-intel-2017a
Command: module load FSL
FastQC
Homepage: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
Description: FastQC is a quality control application for high throughput sequence data.It reads in sequence data in a variety of formats and can either provide an interactiveapplication to review the results of several different QC checks, or create an HTML basedreport which can be integrated into a pipeline.
Available versions: 0.11.5-Java-1.7.0_80, 0.11.5-Java-1.8.0_74, 0.11.7-Java-1.8.0_74
Command: module load FastQC
FastTree
Available versions: 2.1.7-goolf-1.4.10, 2.1.9-goolf-1.4.10
Command: module load FastTree
FreeSurfer
Available versions: 5.3.0-centos6_x86_64, 6.0.0-centos6_x86_64
Command: module load FreeSurfer
fastPHASE
Available versions: 1.4.8
Command: module load fastPHASE
file
Available versions: 5.28-foss-2016b
Command: module load file
fixesproto
Available versions: 5.0-foss-2016b, 5.0-goolf-1.7.20, 5.0-intel-2015b, 5.0-intel-2016a
Command: module load fixesproto
flex
Homepage: http://flex.sourceforge.net/
Description: Flex (Fast Lexical Analyzer) is a tool for generating scanners. A scanner,sometimes called a tokenizer, is a program which recognizes lexical patterns in text.
Available versions: 2.5.35-foss-2016a, 2.5.39, 2.5.39-GCC-4.9.3-binutils-2.25, 2.5.39-GCCcore-4.9.3, 2.5.39-intel-2015b, 2.6.0, 2.6.0-GCCcore-5.4.0, 2.6.0-foss-2016a, 2.6.0-foss-2016b, 2.6.0-goolf-1.7.20, 2.6.0-intel-2015b, 2.6.0-intel-2016a, 2.6.3-GCCcore-6.3.0, 2.6.0-GCCcore-6.1.0, 2.6.4-GCCcore-6.3.0, 2.6.3, 2.6.4-GCCcore-6.4.0, 2.5.39-intel-2016a, 2.6.0-intel-2017a
Command: module load flex
fontconfig
Homepage: http://www.freedesktop.org/software/fontconfig
Description: Fontconfig is a library designed to provide system-wide font configuration,customization and application access.
Available versions: 2.11.1-intel-2015b, 2.11.1-intel-2016a, 2.11.94-foss-2016a, 2.11.94-foss-2016b, 2.11.95-intel-2016a, 2.12.1-foss-2016b, 2.12.1-intel-2015b, 2.12.1-intel-2016a, 2.12.1-GCCcore-6.3.0-libpng-1.6.29, 2.12.4-GCCcore-6.4.0, 2.12.1-intel-2017a, 2.11.94-intel-2016a, 2.11.95-foss-2016b, 2.11.95-foss-2016a, 2.12.6-GCCcore-6.4.0
Command: module load fontconfig
fontsproto
Available versions: 2.1.3-foss-2016b, 2.1.3-goolf-1.7.20, 2.1.3-intel-2016a
Command: module load fontsproto
foss
Homepage: (none)
Description: GNU Compiler Collection (GCC) based compiler toolchain, includingOpenMPI for MPI support, OpenBLAS (BLAS and LAPACK support), FFTW and ScaLAPACK.
Available versions: 2015b, 2016a, 2016b, 2018a
Command: module load foss
freeglut
Homepage: http://freeglut.sourceforge.net/
Description: freeglut is a completely OpenSourced alternative to the OpenGL Utility Toolkit (GLUT) library.
Available versions: 3.0.0-foss-2016b, 3.0.0-intel-2016a, 3.0.0-intel-2017a
Command: module load freeglut
freetype
Homepage: http://freetype.org
Description: FreeType 2 is a software font engine that is designed to be small, efficient,highly customizable, and portable while capable of producing high-qualityoutput (glyph images). It can be used in graphics libraries, display servers,font conversion tools, text image generation tools, and many other productsas well.
Available versions: 2.5.3-intel-2015b, 2.6-intel-2015b, 2.6.2-foss-2016a, 2.6.2-foss-2016b, 2.6.2-goolf-1.7.20, 2.6.2-intel-2016a, 2.6.3-foss-2016a, 2.6.3-intel-2016a, 2.6.5-foss-2016b, 2.6.5-intel-2015b, 2.6.5-intel-2016a, 2.7-foss-2016b, 2.7.1-GCCcore-6.3.0-libpng-1.6.29, 2.7.1-goolf-1.7.20-libpng-1.6.18, 2.8-GCCcore-6.4.0, 2.6.5-intel-2017a, 2.6.3-foss-2016b, 2.6.5-intel-2016b, 2.6-intel-2016a, 2.6-intel-2016b, 2.6.2-intel-2016b, 2.9-GCCcore-6.4.0
Command: module load freetype
FastQ_Screen
Homepage: http://www.bioinformatics.babraham.ac.uk/projects/fastq_screen/
Description: FastQ Screen allows you to set up a standard set of librariesagainst which all of your sequences can be searched. Your search libraries mightcontain the genomes of all of the organisms you work on, along with PhiX,Vectors or other contaminants commonly seen in sequencing experiments.
Available versions: 0.11.2
Command: module load FastQ_Screen
Firefox
Homepage: https://www.mozilla.org/en-US/firefox/new/
Description: Firefox is a free, open source Web browser for Windows, Linux and Mac OS X. It is based on theMozilla code base and offers customization options and features such as its capability to block pop-up windows,tabbed browsing, privacy and security measures, smart searching, and RSS live bookmarks.
Available versions: 44.0.2
Command: module load Firefox
FreeXL
Homepage: https://www.gaia-gis.it/fossil/freexl/index
Description: FreeXL is an open source library to extract valid data from within an Excel (.xls) spreadsheet.
Available versions: 1.0.2-foss-2016b, 1.0.2-intel-2016a
Command: module load FreeXL
freebayes
Homepage: https://github.com/ekg/freebayes
Description: Bayesian haplotype-based polymorphism discovery and genotyping.
Available versions: 1.1.0-goolf-1.7.20_39e5e4b
Command: module load freebayes
frealign
Homepage: http://grigoriefflab.janelia.org/frealign
Description: Frealign is a program for high-resolution refinement of 3D reconstructions from cryo-EM images ofsingle particles.
Available versions: 9.11-intel-2016a-avx-mp
Command: module load frealign
FFmpeg
Homepage: https://www.ffmpeg.org/
Description: A complete, cross-platform solution to record, convert and stream audio and video.
Available versions: 3.3.1-foss-2016b
Command: module load FFmpeg
gcc
Available versions: 6.3.0
Command: module load gcc
gdb
Available versions: 7.12.1
Command: module load gdb
globalarrays
Available versions: openmpi/gcc/64/5.5, openmpi/open64/64/5.5
Command: module load globalarrays
GEMMA
Available versions: GEMMA_Rec
Command: module load rc/GEMMA
gromacs-intel
Available versions: 5.1.1, 2018.1
Command: module load rc/gromacs-intel
GeneTorrent
Available versions: GeneTorrent_4.0.0-9
Command: module load rc/GeneTorrent
GATK
Available versions: 3.7-Java-1.8.0_112, 3.7-Java-1.8.0_92
Command: module load GATK
GC3Pie
Available versions: 2.4.2
Command: module load GC3Pie
GCC
Homepage: http://gcc.gnu.org/
Description: The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran,Java, and Ada, as well as libraries for these languages (libstdc++, libgcj,...).
Available versions: 4.7.2, 4.8.1, 4.8.2, 4.8.4, 4.9.2, 4.9.3, 4.9.3-2.25, 4.9.3-binutils-2.25, 5.4.0-2.26, system, 6.1.0-2.27, 6.3.0-2.27, 6.4.0-2.28, 4.4.7
Command: module load GCC
GCCcore
Homepage: http://gcc.gnu.org/
Description: The GNU Compiler Collection includes front ends for C, C++, Objective-C,Fortran, Java, and Ada, as well as libraries for these languages (libstdc++,libgcj,...). \[NOTE: This module does not include Objective-C, Java or Ada\]
Available versions: 4.9.3, 5.4.0, 6.3.0, 6.1.0, 6.4.0
Command: module load GCCcore
GD
Available versions: 2.52-intel-2016a-Perl-5.18.2
Command: module load GD
GDAL
Homepage: http://www.gdal.org/
Description: GDAL is a translator library for raster geospatial data formats that is released under an X/MIT styleOpen Source license by the Open Source Geospatial Foundation. As a library, it presents a single abstract data modelto the calling application for all supported formats. It also comes with a variety of useful commandline utilities fordata translation and processing.
Available versions: 2.0.2-intel-2016a, 2.1.0-foss-2016a, 2.1.0-foss-2016b, 2.1.0-intel-2015b, 2.1.0-intel-2016a, 2.1.3-intel-2017a-Python-2.7.13, 2.1.3-foss-2016b-Python-2.7.12, 2.1.3-intel-2016a-Python-2.7.12
Command: module load GDAL
GLib
Homepage: http://www.gtk.org/
Description: GLib is one of the base libraries of the GTK+ project
Available versions: 2.40.0-goolf-1.7.20, 2.40.0-intel-2015b, 2.46.0-intel-2015b, 2.47.5-foss-2016a, 2.47.5-foss-2016b, 2.47.5-intel-2016a, 2.48.0-intel-2016a, 2.49.5-intel-2015b, 2.49.5-intel-2016a, 2.52.0-intel-2017a, 2.53.5-GCCcore-6.3.0, 2.53.5-GCCcore-6.4.0, 2.48.0-foss-2016b, 2.48.0-foss-2016a
Command: module load GLib
GMP
Homepage: http://gmplib.org/
Description: GMP is a free library for arbitrary precision arithmetic,operating on signed integers, rational numbers, and floating point numbers.
Available versions: 5.0.5-goolf-1.4.10, 5.0.5-goolf-1.7.20, 6.0.0a-GCC-4.8.4, 6.0.0a-GNU-4.9.3-2.25, 6.1.0-foss-2016a, 6.1.0-foss-2016b, 6.1.0-goolf-1.7.20, 6.1.0-intel-2015b, 6.1.0-intel-2016a, 6.1.1-foss-2016a, 6.1.1-foss-2016b, 6.1.1-intel-2015b, 6.1.1-intel-2016a, 6.1.2-GCCcore-6.3.0, 6.1.1-intel-2017a, 6.1.2-GCCcore-6.4.0, 4.3.2
Command: module load GMP
GNU
Available versions: 4.9.3-2.25
Command: module load GNU
GObject-Introspection
Homepage: https://wiki.gnome.org/GObjectIntrospection/
Description: GObject introspection is a middleware layer between C libraries(using GObject) and language bindings. The C library can be scanned atcompile time and generate a metadata file, in addition to the actualnative C library. Then at runtime, language bindings can read thismetadata and automatically provide bindings to call into the C library.
Available versions: 1.47.1-foss-2016b, 1.47.1-intel-2016a, 1.48.0-intel-2016a, 1.53.5-intel-2017a-Python-2.7.13, 1.48.0-foss-2016b, 1.48.0-foss-2016a
Command: module load GObject-Introspection
GROMACS
Available versions: 5.0.5-intel-2015b-hybrid
Command: module load GROMACS
GSL
Homepage: http://www.gnu.org/software/gsl/
Description: The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers.The library provides a wide range of mathematical routines such as random number generators, special functionsand least-squares fitting.
Available versions: 1.16-goolf-1.7.20, 1.16-intel-2015b, 2.1-foss-2015b, 2.1-foss-2016a, 2.1-intel-2016a, 2.3-foss-2016b
Command: module load GSL
GTK+
Homepage: https://developer.gnome.org/gtk+/stable/
Description: The GTK+ 2 package contains libraries used for creating graphical user interfaces for applications.
Available versions: 2.24.28-intel-2016a, 2.24.31-intel-2017a
Command: module load GTK+
Gdk-Pixbuf
Homepage: https://developer.gnome.org/gdk-pixbuf/stable/
Description: The Gdk Pixbuf is a toolkit for image loading and pixel buffer manipulation.It is used by GTK+ 2 and GTK+ 3 to load and manipulate images. In the past itwas distributed as part of GTK+ 2 but it was split off into a separate packagein preparation for the change to GTK+ 3.
Available versions: 2.32.3-intel-2016a, 2.36.10-intel-2017a
Command: module load Gdk-Pixbuf
Ghostscript
Available versions: 9.19-intel-2016a
Command: module load Ghostscript
gawk
Available versions: 4.0.2-goolf-1.4.10
Command: module load gawk
gcccuda
Available versions: 2017.01
Command: module load gcccuda
gettext
Homepage: http://www.gnu.org/software/gettext/
Description: GNU 'gettext' is an important step for the GNU Translation Project, as it is an asset on which we maybuild many other steps. This package offers to programmers, translators, and even users, a well integrated set of toolsand documentation
Available versions: 0.19.2-goolf-1.7.20, 0.19.2-intel-2015b, 0.19.6-GNU-4.9.3-2.25, 0.19.6-foss-2016a, 0.19.6-foss-2016b, 0.19.6-intel-2015b, 0.19.6-intel-2016a, 0.19.7-intel-2016a, 0.19.8, 0.19.8-foss-2016a, 0.19.8-foss-2016b, 0.19.8-intel-2015b, 0.19.8-intel-2016a, 0.19.8.1, 0.19.8.1-GCCcore-6.3.0, 0.19.6, 0.19.8.1-GCCcore-6.4.0, 0.19.8-intel-2017a, 0.19.4-intel-2015b, 0.19.7-foss-2016b, 0.19.7-foss-2016a
Command: module load gettext
glproto
Available versions: 1.4.17-intel-2016a
Command: module load glproto
gnuplot
Available versions: 5.0.3-foss-2016b, 5.0.3-intel-2016a
Command: module load gnuplot
gnutls
Available versions: 3.4.7-GNU-4.9.3-2.25
Command: module load gnutls
gompi
Homepage: (none)
Description: GNU Compiler Collection (GCC) based compiler toolchain,including OpenMPI for MPI support.
Available versions: 1.4.10, 1.5.12, 1.5.14, 1.7.20, 2015b, 2016a, 2016b, 2018a
Command: module load gompi
goolf
Available versions: 1.4.10, 1.7.20
Command: module load goolf
gperf
Homepage: http://www.gnu.org/software/gperf/
Description: GNU gperf is a perfect hash function generator. For a given list of strings,it produces a hash function and hash table, in form of C or C++ code, forlooking up a value depending on the input string. The hash function isperfect, which means that the hash table has no collisions, and the hashtable lookup needs a single string comparison only.
Available versions: 3.0.4-goolf-1.7.20, 3.0.4-intel-2016a, 3.1-GCCcore-6.4.0
Command: module load gperf
grep
Available versions: 2.15-goolf-1.4.10
Command: module load grep
groff
Available versions: 1.22.2, 1.22.2-foss-2016b
Command: module load groff
gtool
Available versions: 0.7.5_linux_x86_64
Command: module load gtool
guile
Available versions: 1.8.8-GNU-4.9.3-2.25
Command: module load guile
GEOS
Homepage: http://trac.osgeo.org/geos
Description: GEOS (Geometry Engine - Open Source) is a C++ port of the Java Topology Suite (JTS)
Available versions: 3.6.1-intel-2017a-Python-2.7.13, 3.6.1-foss-2016b-Python-2.7.12, 3.6.1-intel-2016a-Python-2.7.12
Command: module load GEOS
GStreamer
Homepage: http://gstreamer.freedesktop.org/
Description: GStreamer is a library for constructing graphs of media-handlingcomponents. The applications it supports range from simpleOgg/Vorbis playback, audio/video streaming to complex audio(mixing) and video (non-linear editing) processing.
Available versions: 0.10.36-intel-2017a, 1.8.3-foss-2016b, 1.8.3-foss-2016a
Command: module load GStreamer
GConf
Homepage: https://projects.gnome.org/gconf/
Description: GConf is a system for storing application preferences.It is intended for user preferences; not configurationof something like Apache, or arbitrary data storage.
Available versions: 3.2.6-intel-2017a
Command: module load GConf
GST-plugins-base
Homepage: http://gstreamer.freedesktop.org/
Description: GStreamer is a library for constructing graphs of media-handlingcomponents. The applications it supports range from simpleOgg/Vorbis playback, audio/video streaming to complex audio(mixing) and video (non-linear editing) processing.
Available versions: 0.10.36-intel-2017a
Command: module load GST-plugins-base
gdc-client
Homepage: https://gdc.nci.nih.gov/access-data/gdc-data-transfer-tool
Description: The gdc-client provides several convenience functions over the GDC API which provides generaldownload/upload via HTTPS.
Available versions: 1.0.1-intel-2016a-Python-2.7.12, 1.3.0-intel-2016a-Python-2.7.12
Command: module load gdc-client
Gctf
Homepage: https://www.mrc-lmb.cam.ac.uk/kzhang/
Description: Gctf is a tool for real-time CTF determination and correction.
Available versions: 1.06
Command: module load Gctf
hdf5
Available versions: 1.10.0
Command: module load hdf5
hdf5_18
Available versions: 1.8.18
Command: module load hdf5_18
hpl
Available versions: 2.2
Command: module load hpl
hwloc
Homepage: http://www.open-mpi.org/projects/hwloc/
Description: The Portable Hardware Locality (hwloc) software package provides a portable abstraction(across OS, versions, architectures, ...) of the hierarchical topology of modern architectures, includingNUMA memory nodes, sockets, shared caches, cores and simultaneous multithreading. It also gathers varioussystem attributes such as cache and memory information as well as the locality of I/O devices such asnetwork interfaces, InfiniBand HCAs or GPUs. It primarily aims at helping applications with gatheringinformation about modern computing hardware so as to exploit it accordingly and efficiently.
Available versions: 1.11.6, 1.10.1-GCC-4.8.4, 1.11.0-GNU-4.9.3-2.25, 1.11.1-iccifort-2015.3.187-GNU-4.9.3-2.25, 1.11.2-GCC-4.9.3-2.25, 1.11.3-GCC-5.4.0-2.26, 1.11.5-GCC-5.4.0-2.26, 1.6.2-GCC-4.7.2, 1.8.1-GCC-4.8.2, 1.11.3-intel-2017a, 1.11.3-GCC-6.1.0-2.27, 1.11.5-GCC-6.3.0-2.27, 1.11.8-GCCcore-6.4.0, 1.11.3-intel-2016a
Command: module load hwloc
hydrasv
Available versions: 0.5.3
Command: module load rc/hydrasv
HOMER
Available versions: 4.9
Command: module load rc/HOMER
HAPGEN2
Available versions: 2.2.0
Command: module load HAPGEN2
HDF5
Homepage: https://support.hdfgroup.org/HDF5/
Description: HDF5 is a data model, library, and file format for storing and managing data.It supports an unlimited variety of datatypes, and is designed for flexibleand efficient I/O and for high volume and complex data.
Available versions: 1.8.15-patch1-intel-2015b, 1.8.16-foss-2016a, 1.8.16-intel-2016a, 1.8.17-foss-2016a, 1.8.17-foss-2016b, 1.8.17-intel-2015b, 1.8.17-intel-2016a, 1.8.18-intel-2017a, 1.10.0-patch1-intel-2017a, 1.10.1-intel-2017a, 1.10.1-foss-2018a
Command: module load HDF5
HISAT2
Available versions: 2.1.0-foss-2016b
Command: module load HISAT2
HPL
Available versions: 2.1-intel-2016a, 2.2-intel-2016a
Command: module load HPL
HTSeq
Available versions: 0.6.1p1-foss-2016b-Python-2.7.12, 0.6.1p1-intel-2015b-Python-2.7.8
Command: module load HTSeq
HTSlib
Homepage: http://www.htslib.org/
Description: A C library for reading/writing high-throughput sequencing data.This package includes the utilities bgzip and tabix
Available versions: 1.3.1-foss-2016a, 1.3-intel-2016a, 1.3.1-foss-2016b, 1.3.2-intel-2017a, 1.4.1-intel-2017a
Command: module load HTSlib
HarfBuzz
Homepage: http://www.freedesktop.org/wiki/Software/HarfBuzz
Description: HarfBuzz is an OpenType text shaping engine.
Available versions: 1.1.3-foss-2016b, 1.1.3-intel-2016a, 1.2.7-intel-2016a, 1.5.1-intel-2017a
Command: module load HarfBuzz
Hypre
Available versions: 2.10.1-intel-2015b
Command: module load Hypre
h5py
Available versions: 2.5.0-intel-2016a-Python-2.7.11-HDF5-1.8.16
Command: module load h5py
help2man
Homepage: https://www.gnu.org/software/help2man/
Description: help2man produces simple manual pages from the '--help' and '--version'output of other commands.
Available versions: 1.47.4-GCCcore-6.3.0, 1.47.4, 1.47.4-GCCcore-6.4.0
Command: module load help2man
HMMER
Homepage: http://hmmer.org/
Description: HMMER is used for searching sequence databases for homologs of protein sequences,and for making protein sequence alignments. It implements methods using probabilistic modelscalled profile hidden Markov models (profile HMMs). Compared to BLAST, FASTA, and othersequence alignment and database search tools based on older scoring methodology,HMMER aims to be significantly more accurate and more able to detect remote homologsbecause of the strength of its underlying mathematical models. In the past, this strengthcame at significant computational expense, but in the new HMMER3 project, HMMER is nowessentially as fast as BLAST.
Available versions: 3.1b2-intel-2016a
Command: module load HMMER
ipmitool
Available versions: 1.8.18
Command: module load ipmitool
intel-cluster-checker
Available versions: 2.2.2
Command: module load intel-cluster-checker
intel-cluster-runtime
Available versions: .version, ia32/2017.0, intel64/2017.0, mic/2017.0
Command: module load intel-cluster-runtime
intel-tbb-oss
Available versions: ia32/2017_20170807oss, intel64/2017_20170807oss
Command: module load intel-tbb-oss
intel
Homepage: http://software.intel.com/en-us/intel-cluster-toolkit-compiler/
Description: Intel Cluster Toolkit Compiler Edition provides Intel C/C++ and Fortran compilers, Intel MPI &Intel MKL.
Available versions: compiler/32/15.0/2015.5.223, compiler/64/15.0/2015.5.223, 2015b, 2016a, 2017a, 2016b
Command: module load intel
iozone
Available versions: 3_465
Command: module load iozone
intel
Available versions: compiler/64/ps_2016/2016.0.047
Command: module load rc/intel
IMPUTE2
Available versions: 2.3.0_x86_64_static, 2.3.2_x86_64_static
Command: module load IMPUTE2
IPython
Available versions: 3.2.0-intel-2015b-Python-2.7.9, 5.0.0-foss-2016a-Python-3.5.1
Command: module load IPython
ImageMagick
Available versions: 7.0.2-5-intel-2016a
Command: module load ImageMagick
icc
Homepage: http://software.intel.com/en-us/intel-compilers/
Description: C and C++ compiler from Intel
Available versions: 2015.3.187, 2015.3.187-GNU-4.9.3-2.25, 2016.1.150-GCC-4.9.3-2.25, 2017.1.132-GCC-6.3.0-2.27, 2017.4.196-GCC-6.4.0-2.28, 2016.3.210-GCC-5.4.0-2.26
Command: module load icc
iccifort
Homepage: http://software.intel.com/en-us/intel-cluster-toolkit-compiler/
Description: Intel Cluster Toolkit Compiler Edition provides Intel C,C++ and fortran compilers, Intel MPI andIntel MKL
Available versions: 2015.3.187-GNU-4.9.3-2.25, 2016.1.150-GCC-4.9.3-2.25, 2017.1.132-GCC-6.3.0-2.27, 2017.4.196-GCC-6.4.0-2.28, 2016.3.210-GCC-5.4.0-2.26
Command: module load iccifort
ifort
Homepage: http://software.intel.com/en-us/intel-compilers/
Description: Fortran compiler from Intel
Available versions: 2015.3.187-GNU-4.9.3-2.25, 2016.1.150-GCC-4.9.3-2.25, 2017.1.132-GCC-6.3.0-2.27, 2017.4.196-GCC-6.4.0-2.28, 2016.3.210-GCC-5.4.0-2.26
Command: module load ifort
iimpi
Homepage: http://software.intel.com/en-us/intel-cluster-toolkit-compiler/
Description: Intel C/C++ and Fortran compilers, alongside Intel MPI.
Available versions: 7.3.5-GNU-4.9.3-2.25, 8.1.5-GCC-4.9.3-2.25, 2017a, 2016b
Command: module load iimpi
imkl
Homepage: http://software.intel.com/en-us/intel-mkl/
Description: Intel Math Kernel Library is a library of highly optimized,extensively threaded math routines for science, engineering, and financialapplications that require maximum performance. Core math functions includeBLAS, LAPACK, ScaLAPACK, Sparse Solvers, Fast Fourier Transforms, Vector Math, and more.
Available versions: 11.2.3.187-iimpi-7.3.5-GNU-4.9.3-2.25, 11.3.1.150-iimpi-8.1.5-GCC-4.9.3-2.25, 2017.1.132-iimpi-2017a, 11.3.3.210-iimpi-2016b
Command: module load imkl
impi
Homepage: http://software.intel.com/en-us/intel-mpi-library/
Description: The Intel(R) MPI Library for Linux* OS is a multi-fabric messagepassing library based on ANL MPICH2 and OSU MVAPICH2. The Intel MPI Library forLinux OS implements the Message Passing Interface, version 3.0 (MPI-3) specification.
Available versions: 5.0.3.048-iccifort-2015.3.187-GNU-4.9.3-2.25, 5.1.2.150-iccifort-2016.1.150-GCC-4.9.3-2.25, 2017.1.132-iccifort-2017.1.132-GCC-6.3.0-2.27, 5.1.3.181-iccifort-2016.3.210-GCC-5.4.0-2.26
Command: module load impi
inputproto
Available versions: 2.3-foss-2016a, 2.3.1-foss-2015b, 2.3.1-foss-2016a, 2.3.1-foss-2016b, 2.3.1-goolf-1.7.20, 2.3.1-intel-2015b, 2.3.1-intel-2016a
Command: module load inputproto
intltool
Homepage: http://freedesktop.org/wiki/Software/intltool/
Description: intltool is a set of tools to centralize translation ofmany different file formats using GNU gettext-compatible PO files.
Available versions: 0.51.0-intel-2016a-Perl-5.22.1, 0.51.0-intel-2017a-Perl-5.24.1, 0.51.0-GCCcore-6.4.0-Perl-5.26.0, 0.51.0-GCCcore-6.4.0-Perl-5.26.1
Command: module load intltool
ITK
Homepage: https://itk.org
Description: Insight Segmentation and Registration Toolkit (ITK) providesan extensive suite of software tools for registering and segmentingmultidimensional imaging data.
Available versions: 4.12.2-foss-2016b-Python-2.7.12
Command: module load ITK
jspr
Available versions: 2017-7-20
Command: module load rc/jspr
JAGS
Available versions: 3.4.0-goolf-1.4.10
Command: module load JAGS
JUnit
Available versions: 4.12-Java-1.7.0_80, 4.12-Java-1.8.0_92
Command: module load JUnit
JasPer
Homepage: http://www.ece.uvic.ca/~frodo/jasper/
Description: The JasPer Project is an open-source initiative to provide a freesoftware-based reference implementation of the codec specified in the JPEG-2000 Part-1 standard.
Available versions: 1.900.1-intel-2016a, 1.900.1-intel-2017a, 1.900.1-foss-2016b
Command: module load JasPer
Java
Homepage: http://java.com/
Description: Java Platform, Standard Edition (Java SE) lets you develop and deployJava applications on desktops and servers.
Available versions: 1.7.0_10, 1.7.0_15, 1.7.0_21, 1.7.0_80, 1.8.0_112, 1.8.0_25, 1.8.0_45, 1.8.0_60, 1.8.0_72, 1.8.0_74, 1.8.0_92, 1.8.0_121, 1.8.0_144, 1.8.0_141, 1.8.0_152
Command: module load Java
Jellyfish
Homepage: http://www.genome.umd.edu/jellyfish.html
Description: Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA.
Available versions: 2.2.4-intel-2015b, 2.2.6-foss-2016b
Command: module load Jellyfish
jupyterhub
Available versions: 0.6.1-foss-2016a-Python-3.5.1
Command: module load jupyterhub
Kent_tools
Available versions: 340
Command: module load Kent_tools
Kerberos_V5
Available versions: 1.12.2-intel-2015b
Command: module load Kerberos_V5
kbproto
Available versions: 1.0.6-foss-2015b, 1.0.6-foss-2016a, 1.0.6-goolf-1.7.20, 1.0.6-intel-2016a, 1.0.7-foss-2016a, 1.0.7-foss-2016b, 1.0.7-goolf-1.7.20, 1.0.7-intel-2015b, 1.0.7-intel-2016a
Command: module load kbproto
KING
Homepage: http://people.virginia.edu/~wc9c/KING/
Description: KING is a toolset making use of high-throughput SNPdata typically seen in a genome-wide association study (GWAS) or asequencing project. Applications of KING include family relationshipinference and pedigree error checking, population substructureidentification, forensics, gene mapping, etc.
Available versions: 2.1.2-foss-2016a
Command: module load KING
kallisto
Homepage: http://pachterlab.github.io/kallisto/
Description: kallisto is a program for quantifying abundances of transcripts from RNA-Seq data, or more generallyof target sequences using high-throughput sequencing reads.
Available versions: 0.43.1-intel-2017a
Command: module load kallisto
lua
Available versions: 5.3.4
Command: module load lua
lapack
Available versions: gcc/64/3.7.0, open64/64/3.7.0
Command: module load lapack
lstc
Available versions: lsdyna
Command: module load rc/lstc
lumpy
Available versions: 0.2.13
Command: module load rc/lumpy
lcmodel
Available versions: 6.3
Command: module load rc/lcmodel
LAPACK
Available versions: 3.4.2-gompi-1.5.12
Command: module load LAPACK
LLVM
Homepage: http://llvm.org/
Description: The LLVM Core libraries provide a modern source- and target-independentoptimizer, along with code generation support for many popular CPUs(as well as some less common ones!) These libraries are built around a wellspecified code representation known as the LLVM intermediate representation("LLVM IR"). The LLVM Core libraries are well documented, and it isparticularly easy to invent your own language (or port an existing compiler)to use LLVM as an optimizer and code generator.
Available versions: 3.7.1-intel-2016a, 3.8.0-intel-2016a, 3.8.1-foss-2016b, 4.0.0-intel-2017a, 5.0.1-GCCcore-6.4.0
Command: module load LLVM
LeadIT
Available versions: 2.1.9
Command: module load LeadIT
LibTIFF
Homepage: http://www.remotesensing.org/libtiff/
Description: tiff: Library and tools for reading and writing TIFF data files
Available versions: 4.0.3-foss-2016b, 4.0.4-goolf-1.7.20, 4.0.4-intel-2015b, 4.0.6-foss-2016b, 4.0.6-intel-2015b, 4.0.6-intel-2016a, 4.0.7-intel-2017a, 4.0.8-intel-2017a, 3.9.7-intel-2016a, 4.0.6-intel-2016b
Command: module load LibTIFF
LittleCMS
Available versions: 2.7-intel-2016a
Command: module load LittleCMS
Lmod
Available versions: 6.3-GCC-4.8.4
Command: module load Lmod
LocusZoom
Available versions: 1.3-goolf-1.7.20
Command: module load LocusZoom
Lua
Available versions: 5.1.4-8-GCC-4.8.4
Command: module load Lua
lftp
Available versions: 4.6.4-GNU-4.9.3-2.25
Command: module load lftp
libGLU
Homepage: ftp://ftp.freedesktop.org/pub/mesa/glu/
Description: The OpenGL Utility Library (GLU) is a computer graphics library for OpenGL.
Available versions: 9.0.0-foss-2016b, 9.0.0-intel-2016a, 9.0.0-intel-2016a-Mesa-11.2.1, 9.0.0-intel-2017a
Command: module load libGLU
libICE
Available versions: 1.0.8-foss-2016a, 1.0.8-intel-2016a, 1.0.9-foss-2016a, 1.0.9-foss-2016b, 1.0.9-intel-2015b, 1.0.9-intel-2016a
Command: module load libICE
libSM
Available versions: 1.2.1-foss-2016a, 1.2.1-intel-2016a, 1.2.2-foss-2016a, 1.2.2-foss-2016b, 1.2.2-intel-2015b, 1.2.2-intel-2016a
Command: module load libSM
libX11
Available versions: 1.6.1-foss-2016a, 1.6.3-foss-2016a, 1.6.3-foss-2016b, 1.6.3-goolf-1.7.20, 1.6.3-goolf-1.7.20-Python-2.7.9, 1.6.3-intel-2015b, 1.6.3-intel-2015b-Python-2.7.10, 1.6.3-intel-2016a
Command: module load libX11
libXau
Available versions: 1.0.8-foss-2015b, 1.0.8-foss-2016a, 1.0.8-foss-2016b, 1.0.8-goolf-1.7.20, 1.0.8-intel-2015b, 1.0.8-intel-2016a
Command: module load libXau
libXcursor
Available versions: 1.1.14-intel-2016a
Command: module load libXcursor
libXdamage
Available versions: 1.1.4-foss-2016b, 1.1.4-goolf-1.7.20, 1.1.4-intel-2016a
Command: module load libXdamage
libXdmcp
Homepage: http://www.freedesktop.org/wiki/Software/xlibs}
Available versions: 1.1.1-intel-2016a, 1.1.2-foss-2015b, 1.1.2-foss-2016a, 1.1.2-foss-2016b, 1.1.2-goolf-1.7.20, 1.1.2-intel-2015b, 1.1.2-intel-2016a
Command: module load libXdmcp
libXext
Available versions: 1.3.3-foss-2016a, 1.3.3-foss-2016b, 1.3.3-goolf-1.7.20, 1.3.3-intel-2015b, 1.3.3-intel-2016a
Command: module load libXext
libXfixes
Available versions: 5.0.1-foss-2016b, 5.0.1-goolf-1.7.20, 5.0.1-intel-2015b, 5.0.1-intel-2016a
Command: module load libXfixes
libXfont
Available versions: 1.5.1-foss-2016b, 1.5.1-goolf-1.7.20, 1.5.1-intel-2016a, 1.5.1-intel-2016a-freetype-2.6.3
Command: module load libXfont
libXft
Available versions: 2.3.2-foss-2016a, 2.3.2-intel-2016a
Command: module load libXft
libXi
Available versions: 1.7.4-intel-2015b, 1.7.6-goolf-1.7.20, 1.7.6-intel-2016a
Command: module load libXi
libXinerama
Available versions: 1.1.3-intel-2016a
Command: module load libXinerama
libXmu
Available versions: 1.1.2-foss-2016a, 1.1.2-intel-2016a
Command: module load libXmu
libXp
Available versions: 1.0.3-foss-2016a, 1.0.3-goolf-1.7.20, 1.0.3-intel-2016a
Command: module load libXp
libXpm
Available versions: 3.5.11-foss-2016a, 3.5.11-intel-2016a
Command: module load libXpm
libXrandr
Available versions: 1.5.0-goolf-1.7.20, 1.5.0-intel-2016a
Command: module load libXrandr
libXrender
Available versions: 0.9.9-foss-2016a, 0.9.9-foss-2016b, 0.9.9-goolf-1.7.20, 0.9.9-intel-2015b, 0.9.9-intel-2016a
Command: module load libXrender
libXt
Available versions: 1.1.4-foss-2016a, 1.1.5-foss-2016a, 1.1.5-foss-2016b, 1.1.5-intel-2015b, 1.1.5-intel-2016a
Command: module load libXt
libcerf
Available versions: 1.4-foss-2016b, 1.4-intel-2016a
Command: module load libcerf
libdrm
Homepage: http://dri.freedesktop.org
Description: Direct Rendering Manager runtime library.
Available versions: 2.4.67-foss-2016b, 2.4.67-goolf-1.7.20, 2.4.67-intel-2016a, 2.4.68-intel-2016a, 2.4.70-foss-2016b, 2.4.76-intel-2017a, 2.4.88-GCCcore-6.4.0
Command: module load libdrm
libffi
Homepage: http://sourceware.org/libffi/
Description: The libffi library provides a portable, high level programming interface to various callingconventions. This allows a programmer to call any function specified by a call interface description at run-time.
Available versions: 3.1-goolf-1.7.20, 3.1-intel-2015b, 3.2.1-GNU-4.9.3-2.25, 3.2.1-foss-2016a, 3.2.1-foss-2016b, 3.2.1-intel-2015b, 3.2.1-intel-2016a, 3.2.1-GCCcore-6.3.0, 3.2.1-intel-2017a, 3.2.1-GCCcore-6.4.0, 3.2.1-intel-2016b
Command: module load libffi
libfontenc
Available versions: 1.1.3-foss-2016b, 1.1.3-goolf-1.7.20, 1.1.3-intel-2016a
Command: module load libfontenc
libgcrypt
Homepage: https://gnupg.org/related_software/libgcrypt/index.html
Description: Libgpg-error is a small library that defines common error values for all GnuPG components.
Available versions: 1.6.5-intel-2016a, 1.6.5-foss-2016a, 1.6.5-intel-2017a
Command: module load libgcrypt
libgd
Homepage: https://libgd.github.io/
Description: GD is an open source code library for the dynamic creation of images by programmers.
Available versions: 2.1.0-intel-2016a, 2.1.1-foss-2016b, 2.1.1-intel-2016a, 2.2.3-intel-2016a, 2.2.4-intel-2017a
Command: module load libgd
libglade
Available versions: 2.6.4-intel-2016a
Command: module load libglade
libgpg-error
Homepage: https://gnupg.org/related_software/libgpg-error/index.html
Description: Libgpg-error is a small library that defines common error values for all GnuPG components.
Available versions: 1.21-intel-2016a, 1.21-foss-2016a, 1.21-foss-2016b, 1.21-intel-2017a
Command: module load libgpg-error
libgtextutils
Available versions: 0.6.1-intel-2015b
Command: module load libgtextutils
libidn
Available versions: 1.32-GNU-4.9.3-2.25
Command: module load libidn
libjpeg-turbo
Homepage: http://sourceforge.net/projects/libjpeg-turbo/
Description: libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEGcompression and decompression. libjpeg is a library that implements JPEG image encoding, decoding and transcoding.
Available versions: 1.3.1-intel-2016a, 1.4.0-goolf-1.7.20, 1.4.1-foss-2015b, 1.4.2-foss-2016a, 1.4.2-foss-2016b, 1.4.2-intel-2015b, 1.4.2-intel-2016a, 1.5.0-foss-2016a, 1.5.0-foss-2016b, 1.5.0-intel-2015b, 1.5.0-intel-2016a, 1.5.1-intel-2017a, 1.5.2-GCCcore-6.3.0, 1.5.2-GCCcore-6.4.0, 1.5.0-intel-2017a, 1.5.0-intel-2016b
Command: module load libjpeg-turbo
libpciaccess
Available versions: 0.13.4-foss-2016b, 0.13.4-goolf-1.7.20, 0.13.4-intel-2016a
Command: module load libpciaccess
libpng
Homepage: http://www.libpng.org/pub/png/libpng.html
Description: libpng is the official PNG reference library
Available versions: 1.5.13-goolf-1.7.20, 1.6.10-intel-2015b, 1.6.10-intel-2016a, 1.6.12-intel-2015b, 1.6.12-intel-2016a, 1.6.16-goolf-1.7.20, 1.6.16-intel-2015b, 1.6.17-foss-2015b, 1.6.17-goolf-1.7.20, 1.6.17-intel-2015b, 1.6.2-goolf-1.4.10, 1.6.2-goolf-1.7.20, 1.6.21-foss-2016a, 1.6.21-foss-2016b, 1.6.21-goolf-1.7.20, 1.6.21-intel-2015b, 1.6.21-intel-2016a, 1.6.23-foss-2016a, 1.6.23-foss-2016b, 1.6.23-intel-2015b, 1.6.23-intel-2016a, 1.6.24-foss-2016b, 1.6.24-intel-2015b, 1.6.24-intel-2016a, 1.6.26-foss-2016b, 1.6.29-intel-2016a, 1.6.29-GCCcore-6.3.0, 1.6.18-goolf-1.7.20, 1.6.32-GCCcore-6.4.0, 1.6.24-intel-2017a, 1.6.24-intel-2016b, 1.6.17-intel-2016a, 1.6.17-intel-2016b, 1.6.21-intel-2016b, 1.6.34-GCCcore-6.4.0
Command: module load libpng
libpthread-stubs
Available versions: 0.3-foss-2015b, 0.3-foss-2016a, 0.3-foss-2016b, 0.3-goolf-1.7.20, 0.3-intel-2015b, 0.3-intel-2016a
Command: module load libpthread-stubs
libreadline
Homepage: http://cnswww.cns.cwru.edu/php/chet/readline/rltop.html
Description: The GNU Readline library provides a set of functions for use by applicationsthat allow users to edit command lines as they are typed in. Both Emacs andvi editing modes are available. The Readline library includes additionalfunctions to maintain a list of previously-entered command lines, to recalland perhaps reedit those lines, and perform csh-like history expansion onprevious commands.
Available versions: 6.2-foss-2016a, 6.2-goolf-1.4.10, 6.2-goolf-1.7.20, 6.3-GNU-4.9.3-2.25, 6.3-foss-2015b, 6.3-foss-2016a, 6.3-foss-2016b, 6.3-goolf-1.7.20, 6.3-intel-2015b, 6.3-intel-2016a, 7.0-GCCcore-6.3.0, 6.2-intel-2016a, 6.3-intel-2017a, 7.0-GCCcore-6.4.0
Command: module load libreadline
libsodium
Available versions: 1.0.8-foss-2016a
Command: module load libsodium
libtasn1
Available versions: 4.7-GNU-4.9.3-2.25
Command: module load libtasn1
libtool
Homepage: http://www.gnu.org/software/libtool
Description: GNU libtool is a generic library support script. Libtool hides the complexityof using shared libraries behind a consistent, portable interface.
Available versions: 2.4.2-foss-2016a, 2.4.2-intel-2016a, 2.4.5-GCC-4.8.4, 2.4.6, 2.4.6-GCC-4.8.4, 2.4.6-GCC-4.9.3-2.25, 2.4.6-GNU-4.9.3-2.25, 2.4.6-foss-2016a, 2.4.6-foss-2016b, 2.4.6-goolf-1.7.20, 2.4.6-intel-2015b, 2.4.6-intel-2016a, 2.4.6-GCCcore-6.3.0, 2.4.6-GCC-5.4.0-2.26, 2.4.6-intel-2017a, 2.4.6-GCCcore-6.4.0
Command: module load libtool
libunistring
Available versions: 0.9.3-GNU-4.9.3-2.25
Command: module load libunistring
libxc
Available versions: 2.2.3-intel-2016a
Command: module load libxc
libxcb
Available versions: 1.11-goolf-1.7.20-Python-2.7.9, 1.11.1-foss-2016a, 1.11.1-foss-2016b, 1.11.1-goolf-1.7.20, 1.11.1-intel-2015b, 1.11.1-intel-2015b-Python-2.7.10, 1.11.1-intel-2016a, 1.8-foss-2016a-Python-2.7.3
Command: module load libxcb
libxkbcommon
Available versions: 0.6.1-intel-2016a
Command: module load libxkbcommon
libxml2
Homepage: http://xmlsoft.org/
Description: Libxml2 is the XML C parser andtoolchain developed for the Gnome project(but usable outside of the Gnome platform).
Available versions: 2.9.2-foss-2015b, 2.9.2-goolf-1.7.20, 2.9.2-intel-2015b, 2.9.3-foss-2016a, 2.9.3-foss-2016b, 2.9.3-goolf-1.7.20, 2.9.3-intel-2016a, 2.9.4-foss-2016a, 2.9.4-foss-2016b, 2.9.4-foss-2016b-Python-2.7.12, 2.9.4-intel-2015b, 2.9.4-intel-2016a, 2.9.4-GCCcore-6.3.0, 2.9.4-intel-2017a-Python-2.7.13, 2.9.2-foss-2016a, 2.9.4-intel-2017a, 2.9.4-GCCcore-6.4.0, 2.9.7-GCCcore-6.4.0
Command: module load libxml2
libxslt
Homepage: http://xmlsoft.org/
Description: Libxslt is the XSLT C library developed for the GNOME project(but usable outside of the Gnome platform).
Available versions: 1.1.28-intel-2016a, 1.1.28-foss-2016a, 1.1.29-intel-2016a, 1.1.32-intel-2016a, 1.1.29-intel-2017a
Command: module load libxslt
libsndfile
Homepage: http://www.mega-nerd.com/libsndfile
Description: Libsndfile is a C library for reading and writing files containing sampled sound(such as MS Windows WAV and the Apple/SGI AIFF format) through one standard library interface.
Available versions: 1.0.28-intel-2017a
Command: module load libsndfile
libyaml
Homepage: http://pyyaml.org/wiki/LibYAML
Description: LibYAML is a YAML 1.1 parser and emitter written in C.
Available versions: 0.1.6-intel-2016a, 0.1.6-intel-2017a, 0.1.7-intel-2016a
Command: module load libyaml
libspatialindex
Homepage: http://libspatialindex.github.io
Description: C++ implementation of R*-tree, an MVR-tree and a TPR-tree with C API
Available versions: 1.8.5-foss-2016b, 1.8.5-intel-2016a
Command: module load libspatialindex
libspatialite
Homepage: https://www.gaia-gis.it/fossil/libspatialite/home
Description: SpatiaLite is an open source library intended to extend the SQLite core to supportfully fledged Spatial SQL capabilities.
Available versions: 4.3.0a-foss-2016b, 4.3.0a-intel-2016a
Command: module load libspatialite
LoFreq
Homepage: http://csb5.github.io/lofreq
Description: Fast and sensitive variant calling from next-gen sequencing data
Available versions: 2.1.2-intel-2017a-Python-2.7.12
Command: module load LoFreq
LibUUID
Homepage: http://sourceforge.net/projects/libuuid/
Description: Portable uuid C library
Available versions: 1.0.3-foss-2016a
Command: module load LibUUID
LAME
Homepage: http://lame.sourceforge.net/
Description: LAME is a high quality MPEG Audio Layer III (MP3) encoder licensed under the LGPL.
Available versions: 3.99.5-foss-2016b
Command: module load LAME
LZO
Homepage: http://www.oberhumer.com/opensource/lzo/
Description: Portable lossless data compression library
Available versions: 2.10-foss-2016b
Command: module load LZO
mpich
Available versions: ge/gcc/64/3.2, ge/open64/64/3.2
Command: module load mpich
mpiexec
Available versions: 0.84_432
Command: module load mpiexec
mvapich
Available versions: gcc/64/1.2rc1, open64/64/1.2rc1
Command: module load mvapich
mvapich2
Available versions: gcc/64/2.2rc1, open64/64/2.2rc1
Command: module load mvapich2
MEGA2
Available versions: 4.9.1
Command: module load rc/MEGA2
Mathematica
Available versions: 10.3
Command: module load rc/Mathematica
manta
Available versions: 1.0.3
Command: module load rc/manta
mat
Available versions: test
Command: module load rc/mat
matlab
Available versions: R2012a, R2013a, R2015a, R2015b, R2016a, R2016b, R2017a, R2018a, R2017b
Command: module load rc/matlab
metasv
Available versions: 0.5.2
Command: module load rc/metasv
mriconvert
Available versions: 2.0.8
Command: module load rc/mriconvert
maskface
Available versions: 12272017
Command: module load rc/maskface
M4
Homepage: http://www.gnu.org/software/m4/m4.html
Description: GNU M4 is an implementation of the traditional Unix macro processor. It ismostly SVR4 compatible although it has some extensions (for example, handlingmore than 9 positional parameters to macros). GNU M4 also has built-infunctions for including files, running shell commands, doing arithmetic, etc.
Available versions: 1.4.16-foss-2016a, 1.4.17, 1.4.17-GCC-4.8.4, 1.4.17-GCC-4.9.3-2.25, 1.4.17-GCC-4.9.3-binutils-2.25, 1.4.17-GCCcore-4.9.3, 1.4.17-GCCcore-5.4.0, 1.4.17-GNU-4.9.3-2.25, 1.4.17-foss-2016a, 1.4.17-foss-2016b, 1.4.17-goolf-1.7.20, 1.4.17-intel-2015b, 1.4.17-intel-2016a, 1.4.18-GCCcore-6.3.0, 1.4.17-GCCcore-6.1.0, 1.4.17-GCC-5.4.0-2.26, 1.4.17-intel-2017a, 1.4.16, 1.4.18, 1.4.18-GCCcore-6.4.0
Command: module load M4
MACH
Available versions: 1.0.18
Command: module load MACH
MACS
Available versions: 1.4.2-1-goolf-1.7.20-Python-2.7.5
Command: module load MACS
METIS
Available versions: 5.1.0-intel-2015b
Command: module load METIS
MOSAIK
Homepage: https://code.google.com/p/mosaik-aligner/
Description: MOSAIK is a reference-guided aligner for next-generationsequencing technologies
Available versions: 2.2.28-intel-2016a-20140425-24cf06
Command: module load MOSAIK
MPICH
Available versions: 3.0.4-GCC-4.8.1
Command: module load MPICH
MRIcroGL
Available versions: 09302016
Command: module load MRIcroGL
MRIcron
Available versions: 06_22_15
Command: module load MRIcron
MRtrix
Available versions: 0.3.14-intel-2016a-Python-2.7.11, 0.3.16-intel-2016a-Python-2.7.11
Command: module load MRtrix
MUSCLE
Homepage: http://drive5.com/muscle/
Description: MUSCLE is one of the best-performing multiple alignment programsaccording to published benchmark tests, with accuracy and speed that are consistentlybetter than CLUSTALW. MUSCLE can align hundreds of sequences in seconds. Most userslearn everything they need to know about MUSCLE in a few minutes—only a handful ofcommand-line options are needed to perform common alignment tasks.
Available versions: 3.8.31-intel-2016a
Command: module load MUSCLE
MVAPICH2
Available versions: 2.2b-GCC-4.9.3-2.25
Command: module load MVAPICH2
Mako
Homepage: http://www.makotemplates.org
Description: A super-fast templating language that borrows the best ideas from the existing templating languages
Available versions: 1.0.4-foss-2016b-Python-2.7.12, 1.0.6-intel-2017a-Python-2.7.13
Command: module load Mako
Maq
Available versions: 0.7.0
Command: module load Maq
Mathematica
Available versions: 11.0.1
Command: module load Mathematica
Maven
Homepage: http://maven.apache.org/index.html}
Available versions: 3.3.9
Command: module load Maven
Mercurial
Homepage: http://mercurial.selenic.com/
Description: Mercurial is a free, distributed source control management tool. It efficiently handles projectsof any size and offers an easy and intuitive interface.
Available versions: 2.5.2-goolf-1.7.20-Python-2.7.3, 3.8.3-foss-2016a-Python-2.7.11, 3.8.3-intel-2016a-Python-2.7.11, 3.2.4-foss-2015b-Python-2.7.9
Command: module load Mercurial
Mesa
Homepage: http://www.mesa3d.org/
Description: Mesa is an open-source implementation of the OpenGL specification -a system for rendering interactive 3D graphics.
Available versions: 11.1.2-intel-2016a, 11.2.1-intel-2016a, 12.0.2-foss-2016b, 17.0.2-intel-2017a
Command: module load Mesa
Minimac2
Available versions: 2014.9.15-intel-2015b
Command: module load Minimac2
Minimac3
Available versions: 1.0.10-intel-2015b
Command: module load Minimac3
makedepend
Available versions: 1.0.5-intel-2016a
Command: module load makedepend
matplotlib
Homepage: http://matplotlib.org
Description: matplotlib is a python 2D plotting library which produces publication quality figures in a variety ofhardcopy formats and interactive environments across platforms. matplotlib can be used in python scripts, the pythonand ipython shell, web application servers, and six graphical user interface toolkits.
Available versions: 1.3.1-intel-2015b-Python-2.7.8, 1.5.1-intel-2016a-Python-2.7.11, 1.5.3-foss-2016b-Python-2.7.12, 2.0.0-foss-2016b-Python-2.7.12, 2.0.2-foss-2016b-Python-2.7.12, 2.0.2-intel-2017a-Python-2.7.13-libpng-1.6.29, 1.5.1-foss-2016a-Python-2.7.11
Command: module load matplotlib
motif
Available versions: 2.3.5-foss-2016a, 2.3.5-intel-2016a, 2.3.7-intel-2016a
Command: module load motif
MACS2
Homepage: https://github.com/taoliu/MACS/
Description: Model Based Analysis for ChIP-Seq data
Available versions: 2.1.0.20150731-foss-2016a-Python-2.7.11, 2.1.1.20160309-foss-2016a-Python-2.7.11
Command: module load MACS2
MEME
Homepage: http://meme-suite.org/
Description: The MEME Suite allows you to: * discover motifs using MEME, DREME (DNA only) orGLAM2 on groups of related DNA or protein sequences, * search sequence databases with motifs usingMAST, FIMO, MCAST or GLAM2SCAN, * compare a motif to all motifs in a database of motifs, * associatemotifs with Gene Ontology terms via their putative target genes, and * analyse motif enrichmentusing SpaMo or CentriMo.
Available versions: 4.12.0-foss-2016a
Command: module load MEME
MultiQC
Available versions: 0.9-foss-2016b-Python-2.7.12, 1.2-foss-2016b-Python-2.7.12, 1.4-foss-2016b-Python-2.7.12, 0.8, 0.8~
Command: module load MultiQC
Mono
Homepage: http://www.mono-project.com/
Description: An open source, cross-platform, implementation of C# and the CLR that isbinary compatible with Microsoft.NET.
Available versions: 4.8.0.495-intel-2017a, 5.2.0.224-intel-2017a
Command: module load Mono
MaSuRCA
Homepage: http://www.genome.umd.edu/masurca.html
Description: MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graphand Overlap-Layout-Consensus (OLC) approaches. MaSuRCA can assemble data sets containingonly short reads from Illumina sequencing or a mixture of short reads and long reads(Sanger, 454, Pacbio and Nanopore).
Available versions: 3.2.4-foss-2018a, 3.2.6-foss-2018a
Command: module load MaSuRCA
minimap2
Homepage: https://github.com/lh3/minimap2
Description: Minimap2 is a fast sequence mapping and alignment program that can find overlaps betweenlong noisy reads, or map long reads or their assemblies to a reference genome optionally with detailedalignment (i.e. CIGAR). At present, it works efficiently with query sequences from a few kilobases to~100 megabases in length at an error rate ~15%. Minimap2 outputs in the PAF or the SAM format. On limitedtest data sets, minimap2 is over 20 times faster than most other long-read aligners. It will replaceBWA-MEM for long reads and contig alignment.
Available versions: 2.0rc1-foss-2016b
Command: module load minimap2
MPFR
Homepage: http://www.mpfr.org
Description: The MPFR library is a C library for multiple-precisionfloating-point computations with correct rounding.
Available versions: 2.4.2
Command: module load MPFR
MotionCor2
Homepage: http://msg.ucsf.edu/em/software/motioncor2.html
Description: MotionCor2 is a multi-GPU program that corrects beam-induced sample motion recordedon dose fractionated movie stacks
Available versions: 1.0.4
Command: module load MotionCor2
netcdf
Available versions: gcc/64/4.4.0, open64/64/4.4.0
Command: module load netcdf
netperf
Available versions: 2.7.0
Command: module load netperf
NAMD
Available versions: 2.12b1-gpu, 2.12
Command: module load rc/NAMD
NASM
Homepage: http://www.nasm.us/
Description: NASM: General-purpose x86 assembler
Available versions: 2.07-intel-2015b, 2.07-intel-2016a, 2.11.06-goolf-1.7.20, 2.11.08-foss-2015b, 2.11.08-foss-2016a, 2.11.08-foss-2016b, 2.11.08-intel-2015b, 2.11.08-intel-2016a, 2.12.02-foss-2016a, 2.12.02-foss-2016b, 2.12.02-intel-2015b, 2.12.02-intel-2016a, 2.12.02-intel-2017a, 2.13.01-GCCcore-6.3.0, 2.13.01-GCCcore-6.4.0, 2.12.02-intel-2016b
Command: module load NASM
NGS
Available versions: 1.2.5-foss-2016b
Command: module load NGS
ncbi-vdb
Available versions: 2.7.0-foss-2016b
Command: module load ncbi-vdb
ncurses
Homepage: http://www.gnu.org/software/ncurses/
Description: The Ncurses (new curses) library is a free software emulation of curses in System V Release 4.0,and more. It uses Terminfo format, supports pads and color and multiple highlights and forms characters andfunction-key mapping, and has all the other SYSV-curses enhancements over BSD Curses.
Available versions: 5.9-GCC-4.8.4, 5.9-GNU-4.9.3-2.25, 5.9-foss-2015b, 5.9-foss-2016a, 5.9-goolf-1.4.10, 5.9-goolf-1.7.20, 5.9-intel-2015b, 5.9-intel-2016a, 6.0, 6.0-GCC-4.9.3-2.25, 6.0-foss-2016a, 6.0-foss-2016b, 6.0-goolf-1.7.20, 6.0-intel-2015b, 6.0-intel-2016a, 6.0-GCCcore-6.3.0, 6.0-intel-2017a, 6.0-GCCcore-6.4.0, 5.9-foss-2016b
Command: module load ncurses
netCDF-Fortran
Available versions: 4.4.4-intel-2016a
Command: module load netCDF-Fortran
netCDF
Homepage: http://www.unidata.ucar.edu/software/netcdf/
Description: NetCDF (network Common Data Form) is a set of software librariesand machine-independent data formats that support the creation, access, and sharing of array-orientedscientific data.
Available versions: 4.3.3.1-foss-2016a, 4.3.3.1-intel-2016a, 4.4.0-intel-2016a, 4.4.1-foss-2016a, 4.4.1-foss-2016b, 4.4.1-intel-2015b, 4.4.1-intel-2016a, 4.4.1.1-intel-2017a, 4.4.1.1-foss-2016b, 4.4.1.1-intel-2016a
Command: module load netCDF
nettle
Homepage: http://www.lysator.liu.se/~nisse/nettle/
Description: Nettle is a cryptographic library that is designed to fit easilyin more or less any context: In crypto toolkits for object-orientedlanguages (C++, Python, Pike, ...), in applications like LSH or GNUPG,or even in kernel space.
Available versions: 3.1.1-GNU-4.9.3-2.25, 3.2-foss-2016b, 3.2-intel-2016a, 3.3-intel-2017a, 3.3-GCCcore-6.4.0, 3.2-intel-2017a, 3.4-foss-2018a
Command: module load nettle
nodejs
Available versions: 4.4.7-foss-2016a
Command: module load nodejs
numactl
Homepage: http://oss.sgi.com/projects/libnuma/
Description: The numactl program allows you to run your application program on specific cpu's and memory nodes.It does this by supplying a NUMA memory policy to the operating system before running your program.The libnuma library provides convenient ways for you to add NUMA memory policies into your own program.
Available versions: 2.0.10-GCC-4.8.4, 2.0.10-GNU-4.9.3-2.25, 2.0.10-iccifort-2015.3.187-GNU-4.9.3-2.25, 2.0.11-GCC-4.9.3-2.25, 2.0.11-GCC-5.4.0-2.26, 2.0.11-GCCcore-6.3.0, 2.0.11-intel-2017a, 2.0.11-GCC-6.1.0-2.27, 2.0.11-GCC-6.3.0-2.27, 2.0.11-GCCcore-6.4.0, 2.0.11-intel-2016a
Command: module load numactl
numpy
Homepage: http://www.numpy.org
Description: NumPy is the fundamental package for scientific computing with Python. It contains among other things:a powerful N-dimensional array object, sophisticated (broadcasting) functions, tools for integrating C/C++ and Fortrancode, useful linear algebra, Fourier transform, and random number capabilities. Besides its obvious scientific uses,NumPy can also be used as an efficient multi-dimensional container of generic data. Arbitrary data-types can bedefined. This allows NumPy to seamlessly and speedily integrate with a wide variety of databases.
Available versions: 1.10.4-intel-2016a-Python-2.7.11, 1.8.2-intel-2015b-Python-2.7.11, 1.8.2-foss-2016a-Python-2.7.11, 1.10.1-goolf-1.7.20-Python-2.7.11
Command: module load numpy
NLopt
Homepage: http://ab-initio.mit.edu/wiki/index.php/NLopt
Description: NLopt is a free/open-source library for nonlinear optimization,providing a common interface for a number of different free optimization routinesavailable online as well as original implementations of various other algorithms.
Available versions: 2.4.2-intel-2017a, 2.4.2-foss-2016b
Command: module load NLopt
NiBabel
Homepage: https://nipy.github.io/nibabel
Description: NiBabel provides read/write access to some common medical and neuroimaging file formats,including: ANALYZE (plain, SPM99, SPM2 and later), GIFTI, NIfTI1, NIfTI2, MINC1, MINC2, MGH and ECATas well as Philips PAR/REC. We can read and write Freesurfer geometry, and read Freesurfer morphometry andannotation files. There is some very limited support for DICOM. NiBabel is the successor of PyNIfTI.
Available versions: 2.1.0-intel-2017a-Python-2.7.13
Command: module load NiBabel
ngmlr
Homepage: https://github.com/philres/ngmlr
Description: Ngmlr is a long-read mapper designed to align PacBilo or Oxford Nanopore to areference genome with a focus on reads that span structural variations.
Available versions: 0.2.6-foss-2016b
Command: module load ngmlr
NCBI-Toolkit
Homepage: http://ncbi.github.io/cxx-toolkit/
Description: The NCBI Toolkit is a collection of utilities developed for theproduction and distribution of GenBank, Entrez, BLAST, and related servicesby the National Center for Biotechnology Information.
Available versions: 18.0.0-intel-2017a
Command: module load NCBI-Toolkit
openmpi
Available versions: mlnx/gcc/64/1.10.5a1, gcc/64/1.10.3, open64/64/1.10.3
Command: module load openmpi
open64
Available versions: 4.5.2.1
Command: module load open64
openblas
Available versions: .version, dynamic/0.2.18
Command: module load openblas
openscenegraph
Available versions: 3.2.1
Command: module load rc/openscenegraph
OTF
Available versions: 1.12.4-gompi-1.5.12
Command: module load OTF
OpenBLAS
Homepage: http://xianyi.github.com/OpenBLAS/
Description: OpenBLAS is an optimized BLAS library based on GotoBLAS2 1.13 BSD version.
Available versions: 0.2.13-GCC-4.8.4-LAPACK-3.5.0, 0.2.14-GNU-4.9.3-2.25-LAPACK-3.5.0, 0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0, 0.2.18-GCC-5.4.0-2.26-LAPACK-3.6.1, 0.2.6-gompi-1.4.10-LAPACK-3.4.2, 0.2.20-GCC-6.4.0-2.28
Command: module load OpenBLAS
OpenMPI
Homepage: http://www.open-mpi.org/
Description: The Open MPI Project is an open source MPI-2 implementation.
Available versions: 1.10.2-GCC-4.9.3-2.25, 1.10.3-GCC-5.4.0-2.26, 1.6.4-GCC-4.7.2, 1.6.5-GCC-4.8.1, 1.6.5-GCC-4.8.2, 1.8.4-GCC-4.8.4, 1.8.8-GNU-4.9.3-2.25, 1.8.8-iccifort-2015.3.187-GNU-4.9.3-2.25, 2.0.2-gcccuda-2017.01, 1.10.7-intel-2017a, 1.10.7-GCC-6.1.0-2.27, 2.0.2-GCC-6.3.0-2.27, 2.1.2-GCC-6.4.0-2.28, 1.10.4-intel-2016a
Command: module load OpenMPI
OpenPGM
Available versions: 5.2.122-foss-2016a, 5.2.122-intel-2015b
Command: module load OpenPGM
OpenSSL
Available versions: 1.0.2g-GCCcore-4.9.3
Command: module load OpenSSL
OpenMM
Homepage: https://simtk.org/home/openmm
Description: OpenMM is a toolkit for molecular simulation.
Available versions: 6.3-intel-2016a-Python-2.7.11
Command: module load OpenMM
puppet
Available versions: 3.8.4
Command: module load puppet
PCRE
Homepage: http://www.pcre.org/
Description: The PCRE library is a set of functions that implement regular expression pattern matching using the same syntaxand semantics as Perl 5.
Available versions: 8.38-foss-2016a, 8.38-foss-2016b, 8.38-intel-2015b, 8.38-intel-2016a, 8.39-intel-2015b, 8.39-intel-2016a, 8.39-foss-2016b, 8.40-intel-2017a, 8.41-GCCcore-6.3.0, 8.12-goolf-1.4.10, 8.12-intel-2016a, 8.41-GCCcore-6.4.0, 8.39-intel-2016b
Command: module load PCRE
PDT
Available versions: 3.20-goolf-1.7.20
Command: module load PDT
PETSc
Available versions: 3.6.3-intel-2015b-Python-2.7.11
Command: module load PETSc
PGI
Homepage: http://www.pgroup.com/
Description: C, C++ and Fortran compilers from The Portland Group - PGI
Available versions: 17.10-GCC-6.3.0-2.27, 17.4-GCC-6.3.0-2.27, 18.5-GCC-6.4.0-2.28
Command: module load PGI
PHASE
Available versions: 2.1.1
Command: module load PHASE
PIL
Available versions: 1.1.7-intel-2015b-Python-2.7.11, 1.1.7-intel-2016a-Python-2.7.11
Command: module load PIL
PLINK
Available versions: 1.07-goolf-1.7.20, 1.07-x86_64, 1.90-foss-2016a
Command: module load PLINK
PROJ
Homepage: http://trac.osgeo.org/proj/
Description: Program proj is a standard Unix filter function which convertsgeographic longitude and latitude coordinates into cartesian coordinates
Available versions: 4.9.2-foss-2016a, 4.9.2-foss-2016b, 4.9.2-intel-2015b, 4.9.2-intel-2016a, 4.9.3-intel-2017a, 4.9.3-foss-2016b, 4.9.3-intel-2016a
Command: module load PROJ
Pango
Homepage: http://www.pango.org/
Description: Pango is a library for laying out and rendering of text, with an emphasis on internationalization.Pango can be used anywhere that text layout is needed, though most of the work on Pango so far has been done in thecontext of the GTK+ widget toolkit. Pango forms the core of text and font handling for GTK+-2.x.
Available versions: 1.39.0-foss-2016b, 1.39.0-intel-2016a, 1.40.1-intel-2016a, 1.40.12-intel-2017a
Command: module load Pango
ParMETIS
Available versions: 4.0.3-intel-2015b
Command: module load ParMETIS
Perl
Homepage: https://www.perl.org/
Description: Larry Wall's Practical Extraction and Report Language
Available versions: 5.16.3-goolf-1.4.10, 5.18.2-intel-2015b, 5.18.2-intel-2016a, 5.22.0-GCC-4.9.2-bare, 5.22.1-foss-2015b, 5.22.1-foss-2016a, 5.22.1-intel-2016a, 5.24.0-intel-2015b, 5.24.0-intel-2016a, 5.22.0-foss-2016a, 5.24.1-intel-2017a, 5.26.0-GCCcore-6.4.0, 5.24.0-intel-2017a, 5.26.1-GCCcore-6.4.0
Command: module load Perl
Pindel
Homepage: http://gmt.genome.wustl.edu/packages/pindel/
Description: Pindel can detect breakpoints of large deletions, medium sizedinsertions, inversions, tandem duplications and other structural variants at single-basedresolution from next-gen sequence data. It uses a pattern growth approach to identify thebreakpoints of these variants from paired-end short reads.
Available versions: 0.2.5b8-foss-2016b
Command: module load Pindel
ProbABEL
Available versions: 0.5.0
Command: module load ProbABEL
PyCairo
Available versions: 1.10.0-intel-2016a-Python-2.7.11
Command: module load PyCairo
PyGObject
Available versions: 2.28.6-intel-2016a-Python-2.7.11
Command: module load PyGObject
PyGTK
Available versions: 2.24.0-intel-2016a-Python-2.7.11
Command: module load PyGTK
PyQt
Available versions: 4.11.3-goolf-1.7.20-Python-2.7.9, 4.11.4-foss-2016a-Python-2.7.11, 4.11.4-intel-2016a-Python-2.7.11
Command: module load PyQt
PyZMQ
Available versions: 14.7.0-intel-2015b-Python-2.7.9-zmq3, 15.3.0-foss-2016a-Python-3.5.1-zmq4
Command: module load PyZMQ
Pygments
Available versions: 2.0.2-intel-2015b-Python-2.7.9
Command: module load Pygments
Pysam
Available versions: 0.9.1.4-foss-2016a-Python-2.7.12, 0.9.1.4-foss-2016b-Python-2.7.12
Command: module load Pysam
Python
Homepage: http://python.org/
Description: Python is a programming language that lets you work more quickly and integrate your systemsmore effectively.
Available versions: 2.7.10-goolf-1.7.20, 2.7.10-intel-2015b, 2.7.11-foss-2016a, 2.7.11-foss-2016b, 2.7.11-goolf-1.7.20, 2.7.11-intel-2015b, 2.7.11-intel-2016a, 2.7.12-foss-2016a, 2.7.12-foss-2016b, 2.7.12-intel-2015b, 2.7.12-intel-2016a, 2.7.3-foss-2016a, 2.7.3-goolf-1.7.20, 2.7.5-goolf-1.7.20, 2.7.8-intel-2015b, 2.7.9-goolf-1.7.20, 2.7.9-intel-2015b, 3.2.3-goolf-1.7.20, 3.5.1-foss-2016a, 2.7.13-intel-2017a, 3.6.1-intel-2017a, 3.6.3-intel-2017a, 2.7.13-GCCcore-6.3.0-bare, 3.5.1-intel-2016a, 2.7.12-intel-2017a, 2.7.9-foss-2015b, 2.7.14-GCCcore-6.4.0-bare, 3.6.4-foss-2018a, 2.7.14-foss-2018a
Command: module load Python
p11-kit
Available versions: 0.23.2-GNU-4.9.3-2.25
Command: module load p11-kit
parallel
Available versions: 20150822-GCC-4.9.2
Command: module load parallel
path.py
Available versions: 8.2.1-foss-2016a-Python-3.5.1
Command: module load path.py
perl-app-cpanminus
Available versions: 1.7039
Command: module load perl-app-cpanminus
picard
Available versions: 2.1.1-Java-1.8.0_74, 2.10.0-Java-1.8.0_74
Command: module load picard
pixman
Homepage: http://www.pixman.org/
Description: Pixman is a low-level software library for pixel manipulation, providing features such as imagecompositing and trapezoid rasterization. Important users of pixman are the cairo graphics library and the X server.
Available versions: 0.34.0-foss-2016b, 0.34.0-intel-2015b, 0.34.0-intel-2016a, 0.34.0-GCCcore-6.3.0, 0.34.0-GCCcore-6.4.0, 0.34.0-foss-2016a, 0.34.0-intel-2016b, 0.32.6-intel-2016a
Command: module load pixman
pkg-config
Homepage: http://www.freedesktop.org/wiki/Software/pkg-config/
Description: pkg-config is a helper tool used when compiling applications and libraries.It helps you insert the correct compiler options on the command line so anapplication can use gcc -o test test.c `pkg-config --libs --cflags glib-2.0`for instance, rather than hard-coding values on where to find glib (or otherlibraries).
Available versions: 0.28-GNU-4.9.3-2.25, 0.29-foss-2016a, 0.29-foss-2016b, 0.29-goolf-1.7.20, 0.29-intel-2016a, 0.29.1-foss-2016b, 0.29.1-intel-2015b, 0.29.1-intel-2016a, 0.29.1-GCCcore-6.3.0, 0.29.1-intel-2017a, 0.29.2-GCCcore-6.4.0
Command: module load pkg-config
pkgconfig
Available versions: 1.1.0-intel-2016a-Python-2.7.11
Command: module load pkgconfig
printproto
Available versions: 1.0.5-foss-2015b, 1.0.5-foss-2016a, 1.0.5-goolf-1.7.20, 1.0.5-intel-2016a
Command: module load printproto
prompt-toolkit
Available versions: 1.0.3-foss-2016a-Python-3.5.1
Command: module load prompt-toolkit
pysqlite
Available versions: 2.6.3-intel-2015b-Python-2.7.9
Command: module load pysqlite
protobuf
Homepage: https://github.com/google/protobuf/
Description: Google Protocol Buffers
Available versions: 3.3.0-intel-2017a
Command: module load protobuf
protobuf-python
Homepage: https://github.com/google/protobuf/
Description: Python Protocol Buffers runtime library.
Available versions: 3.3.0-intel-2017a-Python-3.6.1
Command: module load protobuf-python
PyYAML
Homepage: https://pypi.python.org/pypi/PyYAML/
Description: PyYAML is a YAML parser and emitter for the Python programming language.
Available versions: 3.12-intel-2016a-Python-3.5.1
Command: module load PyYAML
prodigal
Homepage: http://prodigal.ornl.gov/
Description: Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm)is a microbial (bacterial and archaeal) gene finding program developedat Oak Ridge National Laboratory and the University of Tennessee.
Available versions: 2.6.2-GCC-4.9.3-binutils-2.25
Command: module load prodigal
Pillow
Homepage: http://pillow.readthedocs.org/
Description: Pillow is the 'friendly PIL fork' by Alex Clark and Contributors.PIL is the Python Imaging Library by Fredrik Lundh and Contributors.
Available versions: 4.3.0-intel-2017a-Python-2.7.13
Command: module load Pillow
p7zip
Homepage: http://p7zip.sourceforge.net/
Description: p7zip is a quick port of 7z.exe and 7za.exe (command line version of 7zip) for Unix.7-Zip is a file archiver with highest compression ratio.
Available versions: 9.38.1
Command: module load p7zip
patchelf
Homepage: http://nixos.org/patchelf.html
Description: PatchELF is a small utility to modify the dynamic linker and RPATH of ELF executables.
Available versions: 0.9-intel-2016a
Command: module load patchelf
Qt
Available versions: 4.8.6-goolf-1.7.20, 4.8.7-foss-2016a, 4.8.7-foss-2016b, 4.8.7-intel-2016a
Command: module load Qt
Qt5
Available versions: 5.7.0-intel-2016a
Command: module load Qt5
Qwt
Homepage: http://qwt.sourceforge.net/
Description: The Qwt library contains GUI Components and utility classes which are primarily useful for programswith a technical background.
Available versions: 6.1.3-foss-2016b, 6.1.3-intel-2016a
Command: module load Qwt
QwtPolar
Homepage: http://qwtpolar.sourceforge.net/
Description: The QwtPolar library contains classes for displaying values on a polar coordinate system.
Available versions: 1.1.1-foss-2016b, 1.1.1-intel-2016a
Command: module load QwtPolar
QUAST
Homepage: http://quast.sourceforge.net/quast
Description: QUAST evaluates genome assemblies.
Available versions: 4.4-foss-2016a-Python-2.7.11, 4.6.3-foss-2016a-Python-2.7.11
Command: module load QUAST
QIIME
Available versions: qiime-dependencies
Command: module load QIIME
QWRAP
Available versions: QWRAPv3
Command: module load QWRAP
RStudio
Available versions: 1.0.136, 1.0.44
Command: module load rc/RStudio
relion
Available versions: 1.4, 2.0_beta
Command: module load rc/relion
R
Homepage: http://www.r-project.org/
Description: R is a free software environment for statistical computing and graphics.
Available versions: 2.15.3-goolf-1.7.20, 3.0.1-goolf-1.4.10-bare, 3.2.0-goolf-1.7.20, 3.2.1-goolf-1.7.20, 3.2.3-foss-2016a-bare, 3.2.3-intel-2016a-bare, 3.3.1-foss-2016b, 3.3.1-foss-2016b-no-X, 3.3.1-intel-2016a-bare, 3.4.1-intel-2017a-X11-20170314, 3.3.3-intel-2017a-X11-20170314, 3.4.3-intel-2017a-X11-20170314, .3.4.3-foss-2016b-X11-20160819.bak_20180502163551, 3.4.3-foss-2016b-X11-20160819, 3.5.0-intel-2017a-X11-20170314-bare
Command: module load R
RAxML
Available versions: 8.1.1-goolf-1.4.10-mt-avx
Command: module load RAxML
RSeQC
Available versions: 2.6.3-goolf-1.7.20-Python-2.7.10-R-3.2.1
Command: module load RSeQC
Ruby
Available versions: 2.3.3
Command: module load Ruby
randrproto
Available versions: 1.5.0-goolf-1.7.20, 1.5.0-intel-2015b, 1.5.0-intel-2016a
Command: module load randrproto
renderproto
Available versions: 0.11-foss-2016a, 0.11-foss-2016b, 0.11-goolf-1.7.20, 0.11-intel-2015b, 0.11-intel-2016a
Command: module load renderproto
requests
Available versions: 2.7.0-intel-2015b-Python-2.7.9
Command: module load requests
ResMap
Homepage: http://resmap.sourceforge.net/
Description: ResMap (Resolution Map) is a Python (NumPy/SciPy) application with a Tkinter GUI.It is an easy to use software package for computing the local resolution of 3D density mapsstudied in structural biology, primarily electron cryo-microscopy (cryo-EM).
Available versions: 1.1.4
Command: module load ResMap
RELION
Homepage: http://www2.mrc-lmb.cam.ac.uk/relion/index.php/Main_Page
Description: RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computerprogram that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D classaverages in electron cryo-microscopy (cryo-EM).
Available versions: 2.1-intel-2016a-CUDA-8.0.44
Command: module load RELION
scalapack
Available versions: mvapich2/gcc/64/2.0.2, openmpi/gcc/64/2.0.2
Command: module load scalapack
sge
Available versions: 2011.11p1
Command: module load sge
slurm
Available versions: 17.02.2
Command: module load slurm
SAS
Available versions: v9.4
Command: module load rc/SAS
Salmon
Available versions: 0.7.2
Command: module load rc/Salmon
soapsv
Available versions: 1.3
Command: module load rc/soapsv
snakemake
Available versions: 4.0.0, 4.8.0
Command: module load rc/snakemake
S.A.G.E.
Available versions: 6.3
Command: module load S.A.G.E.
SAMtools
Homepage: http://www.htslib.org/
Description: SAM Tools provide various utilities for manipulating alignments in the SAM format,including sorting, merging, indexing and generating alignments in a per-position format.
Available versions: 0.1.19-foss-2016a, 0.1.19-goolf-1.7.20, 1.3.1-foss-2016a, 1.3.1-intel-2015b, 1.5-intel-2017a, 1.6-intel-2017a, 1.6-intel-2016a, 1.3.1-intel-2017a-HTSlib-1.3.2, 1.4.1-intel-2017a
Command: module load SAMtools
SCOTCH
Available versions: 6.0.4-intel-2015b
Command: module load SCOTCH
SHRiMP
Available versions: 2.2.3-goolf-1.4.10
Command: module load SHRiMP
SIP
Available versions: 4.16.4-goolf-1.7.20-Python-2.7.9, 4.16.4-intel-2015b-Python-2.7.9, 4.16.8-intel-2015b-Python-2.7.9, 4.18-foss-2016a-Python-2.7.11, 4.18-intel-2016a-Python-2.7.11
Command: module load SIP
SOLAR-Eclipse
Available versions: 8.1.1
Command: module load SOLAR-Eclipse
SPAdes
Homepage: http://cab.spbu.ru/software/spades/
Description: Genome assembler for single-cell and isolates data sets
Available versions: 3.9.0-foss-2016a, 3.12.0-foss-2016b
Command: module load SPAdes
SPPARKS
Available versions: 07192016-intel-2016a
Command: module load SPPARKS
SQLite
Homepage: http://www.sqlite.org/
Description: SQLite: SQL Database Engine in a C Library
Available versions: 3.13.0-foss-2016a, 3.13.0-foss-2016b, 3.13.0-intel-2015b, 3.13.0-intel-2016a, 3.8.10.2-goolf-1.7.20, 3.8.10.2-intel-2015b, 3.8.8.1-foss-2015b, 3.8.8.1-goolf-1.7.20, 3.8.8.1-intel-2015b, 3.9.2-foss-2016a, 3.9.2-foss-2016b, 3.9.2-goolf-1.7.20, 3.9.2-intel-2015b, 3.9.2-intel-2016a, 3.17.0-GCCcore-6.3.0, 3.8.9-foss-2016a, 3.8.5-goolf-1.4.10, 3.8.5-intel-2016a, 3.13.0-intel-2017a, 3.20.1-GCCcore-6.4.0, 3.21.0-GCCcore-6.4.0
Command: module load SQLite
STAR-Fusion
Available versions: 0.8.0-goolf-1.4.10-Perl-5.16.3
Command: module load STAR-Fusion
STAR
Available versions: 2.5.1b-goolf-1.4.10, 2.5.2a-foss-2016a, 2.5.4b-intel-2017a, 2.5.2b, 2.5.2b~
Command: module load STAR
SWIG
Homepage: http://www.swig.org/
Description: SWIG is a software development tool that connects programs written in C and C++ witha variety of high-level programming languages.
Available versions: 3.0.10-intel-2016a-Python-2.7.12-PCRE-8.39, 3.0.12-intel-2017a-Python-2.7.13, 3.0.11-foss-2016b-Python-2.7.12, 3.0.11-intel-2016a-Python-2.7.12, 3.0.8-intel-2016a-Python-2.7.11, 3.0.12-foss-2018a-Python-3.6.4, 3.0.12-foss-2018a-Python-2.7.14
Command: module load SWIG
Salmon
Homepage: https://github.com/COMBINE-lab/salmon
Description: Salmon is a wicked-fast program to produce a highly-accurate,transcript-level quantification estimates from RNA-seq data.
Available versions: 0.5.1-intel-2015b-Python-2.7.10, 0.7.2-intel-2015b-Python-2.7.10, 0.8.2-foss-2016b-Python-2.7.12, 0.9.1-foss-2016b-Python-2.7.12
Command: module load Salmon
ScaLAPACK
Homepage: http://www.netlib.org/scalapack/
Description: The ScaLAPACK (or Scalable LAPACK) library includes a subset of LAPACK routinesredesigned for distributed memory MIMD parallel computers.
Available versions: 2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2, 2.0.2-gompi-1.7.20-OpenBLAS-0.2.13-LAPACK-3.5.0, 2.0.2-gompi-2015b-OpenBLAS-0.2.14-LAPACK-3.5.0, 2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0, 2.0.2-gompi-2016b-OpenBLAS-0.2.18-LAPACK-3.6.1, 2.0.2-gompi-2018a-OpenBLAS-0.2.20
Command: module load ScaLAPACK
ScientificPython
Available versions: 2.9.4-intel-2015b-Python-2.7.11
Command: module load ScientificPython
Singularity
Homepage: http://gmkurtzer.github.io/singularity
Description: Singularity is a portable application stack packaging and runtime utility.
Available versions: 1.0-GCC-4.9.3-2.25, 2.3.1-GCC-5.4.0-2.26, 2.4-GCC-5.4.0-2.26, 2.4.1-GCC-5.4.0-2.26, 2.4.5-GCC-5.4.0-2.26
Command: module load Singularity
Spack
Available versions: 0.10.0
Command: module load Spack
SuiteSparse
Available versions: 4.4.6-intel-2015b-ParMETIS-4.0.3
Command: module load SuiteSparse
Szip
Homepage: http://www.hdfgroup.org/doc_resource/SZIP/
Description: Szip compression software, providing lossless compression of scientific data
Available versions: 2.1-foss-2016a, 2.1-foss-2016b, 2.1-intel-2015b, 2.1-intel-2016a, 2.1-intel-2017a, 2.1.1-GCCcore-6.4.0
Command: module load Szip
scipy
Available versions: 0.17.0-intel-2016a-Python-2.7.11
Command: module load scipy
shapeit
Available versions: 2.r837.GLIBCv2.12_linux_x86_64
Command: module load shapeit
sympy
Available versions: 0.7.6.1-intel-2015b-Python-2.7.11
Command: module load sympy
SRA-Toolkit
Homepage: http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=std
Description: The NCBI SRA Toolkit enables reading (dumping) of sequencing filesfrom the SRA database and writing (loading) files into the .sra format
Available versions: 2.5.4-1-centos_linux64, 2.8.2-1-centos_linux64
Command: module load SRA-Toolkit
sparsehash
Homepage: https://code.google.com/p/sparsehash/
Description: An extremely memory-efficient hash_mapimplementation. 2 bits/entry overhead! The SparseHash librarycontains several hash-map implementations, includingimplementations that optimize for space or speed.
Available versions: 2.0.2-foss-2016a
Command: module load sparsehash
Spark
Homepage: http://spark.apache.org
Description: Spark is Hadoop MapReduce done in memory
Available versions: 2.2.0-Hadoop-2.6-Java-1.8.0_144
Command: module load Spark
summovie
Homepage: http://grigoriefflab.janelia.org/unblur
Description: Movie frame sums can be calculated using summovie,which uses the alignment results from a prior run of Unblur.
Available versions: 1.0.2
Command: module load summovie
snakemakeslurm
Available versions: 4.8.0/1, 4.8.0/1~
Command: module load snakemakeslurm
torque
Available versions: 6.1.1
Command: module load torque
tortoise
Available versions: 2.5.2b, 3.0.0
Command: module load rc/tortoise
transdecoder
Available versions: 5.3.0
Command: module load rc/transdecoder
Tar
Available versions: 1.29-goolf-1.4.10
Command: module load Tar
Tcl
Homepage: http://www.tcl.tk/
Description: Tcl (Tool Command Language) is a very powerful but easy to learn dynamicprogramming language, suitable for a very wide range of uses, including weband desktop applications, networking, administration, testing and many more.
Available versions: 8.5.12-goolf-1.4.10, 8.5.16-intel-2016a, 8.6.3-foss-2015b, 8.6.3-goolf-1.7.20, 8.6.3-intel-2015b, 8.6.4-foss-2015b, 8.6.4-foss-2016a, 8.6.4-foss-2016b, 8.6.4-goolf-1.7.20, 8.6.4-intel-2015b, 8.6.4-intel-2016a, 8.6.5-foss-2016a, 8.6.5-foss-2016b, 8.6.5-intel-2015b, 8.6.5-intel-2016a, 8.6.6-GCCcore-6.3.0, 8.6.4-goolf-1.4.10, 8.6.5-intel-2017a, 8.6.8-GCCcore-6.4.0, 8.6.7-GCCcore-6.4.0
Command: module load Tcl
Tk
Homepage: http://www.tcl.tk/
Description: Tk is an open source, cross-platform widget toolchain that provides a library of basic elements forbuilding a graphical user interface (GUI) in many different programming languages.
Available versions: 8.6.3-foss-2015b-no-X11, 8.6.3-goolf-1.7.20-no-X11, 8.6.3-intel-2015b-no-X11, 8.6.4-foss-2015b-no-X11, 8.6.4-foss-2016a-no-X11, 8.6.4-foss-2016b-no-X11, 8.6.4-goolf-1.7.20, 8.6.4-goolf-1.7.20-no-X11, 8.6.4-intel-2015b-no-X11, 8.6.4-intel-2016a-no-X11, 8.6.5-foss-2016a, 8.6.5-foss-2016b, 8.6.5-intel-2015b, 8.6.5-intel-2016a, 8.6.6-intel-2017a, 8.6.5-intel-2017a
Command: module load Tk
TopHat
Available versions: 2.1.0-intel-2015b, 2.1.1-foss-2016a
Command: module load TopHat
Trim_Galore
Available versions: 0.4.2-foss-2016b, 0.4.4-foss-2016b
Command: module load Trim_Galore
Trimmomatic
Available versions: 0.36-Java-1.8.0_92
Command: module load Trimmomatic
Trinity
Available versions: 2.2.0-foss-2016a
Command: module load Trinity
tabix
Available versions: 0.2.6-goolf-1.7.20, 0.2.6-intel-2015b
Command: module load tabix
tbb
Homepage: https://01.org/tbb/
Description: Intel(R) Threading Building Blocks (Intel(R) TBB) lets you easily write parallel C++ programs thattake full advantage of multicore performance, that are portable, composable and have future-proof scalability.
Available versions: 2017_U6-intel-2017a, 2017_U5-intel-2017a, 2017_U6-intel-2016a, 2017_U5-foss-2016b
Command: module load tbb
tcsh
Available versions: 6.18.01-goolf-1.7.20, 6.18.01-intel-2015b, 6.19.00-foss-2015b, 6.19.00-foss-2016a, 6.19.00-foss-2016b, 6.19.00-intel-2016a
Command: module load tcsh
testpath
Available versions: 0.3-foss-2016a-Python-3.5.1
Command: module load testpath
texinfo
Available versions: 4.13a
Command: module load texinfo
Tensorflow
Homepage: https://www.tensorflow.org/
Description: An open-source software library for Machine Intelligence
Available versions: 1.2.0-intel-2017a-Python-3.6.1
Command: module load Tensorflow
TransDecoder
Homepage: https://github.com/TransDecoder/TransDecoder/wiki
Description: TransDecoder identifies candidate coding regions within transcript sequences,such as those generated by de novo RNA-Seq transcript assembly using Trinity,or constructed based on RNA-Seq alignments to the genome usingTophat and Cufflinks.
Available versions: 5.1.0-intel-2017a-Perl-5.24.1
Command: module load TransDecoder
trim_galore
Available versions: 0.4.2, 0.4.2~
Command: module load trim_galore
util-linux
Homepage: http://www.kernel.org/pub/linux/utils/util-linux
Description: Set of Linux utilities
Available versions: 2.26.1-intel-2015b, 2.27.1-foss-2016a, 2.28-foss-2016a, 2.28-intel-2016a, 2.29.2-intel-2017a, 2.30.1-GCCcore-6.3.0, 2.31-GCCcore-6.4.0
Command: module load util-linux
unblur
Homepage: http://grigoriefflab.janelia.org/unblur
Description: Unblur is used to align the frames of movies recorded on an electron microscopeto reduce image blurring due to beam-induced motion.It reads stacks of movies that are stored in MRC/CCP4 format.
Available versions: 1.0.2
Command: module load unblur
vmd
Available versions: 1.9.3
Command: module load rc/vmd
VEGAS
Available versions: 0.8.27
Command: module load VEGAS
VICUNA
Available versions: 1.3
Command: module load VICUNA
VPhaser-2
Available versions: 02112013-intel-2016a
Command: module load VPhaser-2
VTK
Homepage: http://www.vtk.org
Description: The Visualization Toolkit (VTK) is an open-source, freely available software system for3D computer graphics, image processing and visualization. VTK consists of a C++ class library and severalinterpreted interface layers including Tcl/Tk, Java, and Python. VTK supports a wide variety of visualizationalgorithms including: scalar, vector, tensor, texture, and volumetric methods; and advanced modeling techniquessuch as: implicit modeling, polygon reduction, mesh smoothing, cutting, contouring, and Delaunay triangulation.
Available versions: 7.1.1-intel-2017a-Python-2.7.13, 6.3.0-foss-2016b-Python-2.7.12
Command: module load VTK
VCFtools
Homepage: https://vcftools.github.io
Description: The aim of VCFtools is to provideeasily accessible methods for working with complexgenetic variation data in the form of VCF files.
Available versions: 0.1.14-intel-2016a-Perl-5.22.1, 0.1.15-intel-2016a-Perl-5.22.1
Command: module load VCFtools
wcwidth
Available versions: 0.1.7-foss-2016a-Python-3.5.1
Command: module load wcwidth
wxPython
Homepage: http://www.wxpython.org
Description: wxPython is a GUI toolkit for the Python programming language.It allows Python programmers to create programs with a robust,highly functional graphical user interface, simply and easily.It is implemented as a Python extension module (native code)that wraps the popular wxWidgets cross platform GUI library,which is written in C++.
Available versions: 3.0.2.0-intel-2017a-Python-2.7.13
Command: module load wxPython
wxWidgets
Homepage: http://www.wxwidgets.org/
Description: wxWidgets is a C++ library that lets developers create applications for Windows,Mac OS X, Linux and other platforms with a single code base.It has language bindings for Python, Perl, Ruby and many other languages.
Available versions: 3.0.3-intel-2016a
Command: module load wxWidgets
xget
Available versions: xget-public
Command: module load rc/xget
X11
Homepage: https://www.x.org
Description: The X Window System (X11) is a windowing system for bitmap displays
Available versions: 20160819-foss-2016b, 20160819-intel-2015b, 20160819-intel-2016a, 20170314-GCCcore-6.3.0, 20171023-GCCcore-6.4.0
Command: module load X11
XKeyboardConfig
Available versions: 2.17-intel-2016a
Command: module load XKeyboardConfig
XML-Parser
Homepage: http://search.cpan.org/~toddr/XML-Parser-2.41/
Description: This is a Perl extension interface to James Clark's XML parser, expat.
Available versions: 2.44-intel-2016a-Perl-5.22.1, 2.44_01-intel-2017a-Perl-5.24.1, 2.44_01-GCCcore-6.4.0-Perl-5.26.0, 2.44_01-GCCcore-6.4.0-Perl-5.26.1
Command: module load XML-Parser
XZ
Homepage: http://tukaani.org/xz/
Description: xz: XZ utilities
Available versions: 5.2.2-foss-2016a, 5.2.2-foss-2016b, 5.2.2-intel-2015b, 5.2.2-intel-2016a, 5.2.3-GCCcore-6.3.0, 5.2.3-intel-2016a, 5.2.2-intel-2017a, 5.2.3-GCCcore-6.4.0
Command: module load XZ
xbitmaps
Available versions: 1.1.1-foss-2016a, 1.1.1-intel-2016a
Command: module load xbitmaps
xcb-proto
Available versions: 1.11, 1.11-goolf-1.7.20-Python-2.7.9, 1.11-intel-2015b-Python-2.7.10, 1.7-foss-2016a-Python-2.7.3
Command: module load xcb-proto
xcb-util-image
Available versions: 0.4.0-intel-2015b, 0.4.0-intel-2016a
Command: module load xcb-util-image
xcb-util-keysyms
Available versions: 0.4.0-intel-2015b, 0.4.0-intel-2016a
Command: module load xcb-util-keysyms
xcb-util-renderutil
Available versions: 0.3.9-intel-2015b, 0.3.9-intel-2016a
Command: module load xcb-util-renderutil
xcb-util-wm
Available versions: 0.4.1-intel-2015b, 0.4.1-intel-2016a
Command: module load xcb-util-wm
xcb-util
Available versions: 0.4.0-intel-2015b, 0.4.0-intel-2016a
Command: module load xcb-util
xextproto
Available versions: 7.2.1-foss-2016a, 7.2.1-intel-2016a, 7.3.0-foss-2015b, 7.3.0-foss-2016a, 7.3.0-foss-2016b, 7.3.0-goolf-1.7.20, 7.3.0-intel-2015b, 7.3.0-intel-2016a
Command: module load xextproto
xf86vidmodeproto
Available versions: 2.3.1-intel-2016a
Command: module load xf86vidmodeproto
xineramaproto
Available versions: 1.2.1-intel-2016a
Command: module load xineramaproto
xorg-macros
Available versions: 1.19.0-foss-2016a, 1.19.0-foss-2016b, 1.19.0-goolf-1.7.20, 1.19.0-intel-2016a
Command: module load xorg-macros
xprop
Homepage: http://www.x.org/wiki/
Description: The xprop utility is for displaying window and font properties in an X server.One window or font is selected using the command line arguments or possiblyin the case of a window, by clicking on the desired window. A list ofproperties is then given, possibly with formatting information.
Available versions: 1.2.2-intel-2016a, 1.2.2-intel-2017a
Command: module load xprop
xproto
Available versions: 7.0.23-foss-2016a, 7.0.26-intel-2016a, 7.0.27-foss-2015b, 7.0.27-goolf-1.7.20, 7.0.28-foss-2016a, 7.0.28-foss-2016b, 7.0.28-goolf-1.7.20, 7.0.28-intel-2015b, 7.0.28-intel-2016a
Command: module load xproto
xtrans
Homepage: http://www.freedesktop.org/wiki/Software/xlibs}
Available versions: 1.2-foss-2016a, 1.3.4-intel-2016a, 1.3.5-foss-2015b, 1.3.5-foss-2016a, 1.3.5-foss-2016b, 1.3.5-goolf-1.7.20, 1.3.5-intel-2015b, 1.3.5-intel-2016a
Command: module load xtrans
Xerces-C++
Homepage: http://xerces.apache.org/xerces-c/
Description: Xerces-C++ is a validating XML parser written in a portablesubset of C++. Xerces-C++ makes it easy to give your application the ability toread and write XML data. A shared library is provided for parsing, generating,manipulating, and validating XML documents using the DOM, SAX, and SAX2APIs.
Available versions: 3.1.2-intel-2015b
Command: module load Xerces-C++
XQilla
Homepage: http://xqilla.sourceforge.net/HomePage
Description: XQilla is an XQuery and XPath 2 library and command line utility written in C++,implemented on top of the Xerces-C++ library.
Available versions: 2.3.2-intel-2015b
Command: module load XQilla
x264
Homepage: http://www.videolan.org/developers/x264.html
Description: x264 is a free software library and application for encoding video streams into the H.264/MPEG-4AVC compression format, and is released under the terms of the GNU GPL.
Available versions: 20160614-foss-2016b
Command: module load x264
x265
Homepage: http://x265.org/
Description: x265 is a free software library and application for encoding video streams into the H.265AVC compression format, and is released under the terms of the GNU GPL.
Available versions: 2.4-foss-2016b
Command: module load x265
Yasm
Homepage: http://www.tortall.net/projects/yasm/
Description: Yasm: Complete rewrite of the NASM assembler with BSD license
Available versions: 1.3.0-intel-2015b, 1.3.0-foss-2016b
Command: module load Yasm
ZeroMQ
Available versions: 3.2.5-intel-2015b, 4.1.4-foss-2016a
Command: module load ZeroMQ
zlib
Homepage: http://www.zlib.net/
Description: zlib is designed to be a free, general-purpose, legally unencumbered -- that is,not covered by any patents -- lossless data-compression library for use on virtually anycomputer hardware and operating system.
Available versions: 1.2.11-GCCcore-6.3.0, 1.2.11-intel-2016a, 1.2.5-goolf-1.4.10, 1.2.5-goolf-1.7.20, 1.2.7-foss-2016a, 1.2.7-goolf-1.4.10, 1.2.7-goolf-1.7.20, 1.2.7-intel-2015b, 1.2.7-intel-2016a, 1.2.8, 1.2.8-GCC-4.9.3-binutils-2.25, 1.2.8-GCCcore-4.9.3, 1.2.8-GCCcore-5.4.0, 1.2.8-GNU-4.9.3-2.25, 1.2.8-foss-2015b, 1.2.8-foss-2016a, 1.2.8-foss-2016b, 1.2.8-goolf-1.4.10, 1.2.8-goolf-1.7.20, 1.2.8-intel-2015b, 1.2.8-intel-2016a, 1.2.8-GCCcore-6.1.0, 1.2.8-intel-2017a, 1.2.11, 1.2.11-GCCcore-6.4.0, 1.2.8-intel-2016b
Command: module load zlib