NgsCcts: Difference between revisions
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** abyss_1.3.4 ([http://www.bcgsc.ca/downloads/abyss/abyss-1.3.4.tar.gz download src])([[NgsCctsBuildAbyss]]) | ** abyss_1.3.4 ([http://www.bcgsc.ca/downloads/abyss/abyss-1.3.4.tar.gz download src])([[NgsCctsBuildAbyss]]) | ||
*** maxk=100 | *** maxk=100 | ||
* [http://www.broadinstitute.org/scientific-community/science/projects/viral-genomics/viral-genomics-analysis-software?package=VICUNA VICUNA] from Broad Institute - Viral genome denovo assembler | |||
** VICUNA_v1.2 | |||
** V-FAT | |||
** V-Phaser & V-Profiler | |||
Revision as of 21:49, 30 October 2012
This page documents apps installed by the CCTS BMI group in cheaha:/share/apps/ngs-ccts
Links to latest versions of each package are in /share/apps/ngs-ccts/latest.
See also PublicDatasetsNgs for genomes, indices and databases
Microbiome
Alignment Visualization
Short Read Aligners
- bowtie
- bowtie-0.12.7 (linked from Galaxy)
- bowtie2
- bowtie2-2.0.0-beta7 (download binary)
- bwa
- bwa-0.6.2 (download src) NgsCctsBuildBwa
Short Read (denovo) Assemblers
- velvet
- velvet_1.2.08 (download src)(NgsCctsBuildVelvet)
- MAXKMERLENGTH = 57
- LONGSEQUENCES
- velvet_1.2.08 (download src)(NgsCctsBuildVelvet)
- ABySS NOT DONE
- abyss_1.3.4 (download src)(NgsCctsBuildAbyss)
- maxk=100
- abyss_1.3.4 (download src)(NgsCctsBuildAbyss)
- VICUNA from Broad Institute - Viral genome denovo assembler
- VICUNA_v1.2
- V-FAT
- V-Phaser & V-Profiler