Revision as of 16:48, 31 October 2012

Shared CCTS NGS apps

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

velvet
- velvet_1.2.08 (download src)(NgsCctsBuildVelvet)
  - MAXKMERLENGTH = 57
  - LONGSEQUENCES

ABySS NOT DONE
- abyss_1.3.4 (download src)(NgsCctsBuildAbyss)
  - maxk=100
VICUNA from Broad Institute - Viral genome denovo assembler NOT DONE
- VICUNA_v1.2 [1]
- V-FAT [2]
- V-Phaser & V-Profiler [3]

@@ Line 35: / Line 35: @@
 *** 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 '''NOT DONE'''
-** VICUNA_v1.2
+** VICUNA_v1.2 [http://www.broadinstitute.org/software/viral/vicuna/vicuna.zip]
-** V-FAT
+** V-FAT [http://www.broadinstitute.org/software/viral/vfat/vfat.zip]
-** V-Phaser & V-Profiler
+** V-Phaser & V-Profiler [http://www.broadinstitute.org/software/viral/v_phaser/v_phaser.zip]