NgsCcts: Difference between revisions
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** bowtie2-2.0.0-beta7 [http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.0.0-beta7/bowtie2-2.0.0-beta7-linux-x86_64.zip?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fbowtie-bio%2Ffiles%2Fbowtie2%2F2.0.0-beta7%2F&ts=1349813862&use_mirror=superb-dca3 (download binary)] | ** bowtie2-2.0.0-beta7 [http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.0.0-beta7/bowtie2-2.0.0-beta7-linux-x86_64.zip?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fbowtie-bio%2Ffiles%2Fbowtie2%2F2.0.0-beta7%2F&ts=1349813862&use_mirror=superb-dca3 (download binary)] | ||
* bwa | * bwa | ||
** bwa-0.6.2 [http://downloads.sourceforge.net/project/bio-bwa/bwa-0.6.2.tar.bz2?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fbio-bwa%2Ffiles%2F&ts=1349814953&use_mirror=iweb (download src)] [ | ** bwa-0.6.2 [http://downloads.sourceforge.net/project/bio-bwa/bwa-0.6.2.tar.bz2?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fbio-bwa%2Ffiles%2F&ts=1349814953&use_mirror=iweb (download src)] [wiki:NgsCctsBuildBwa] | ||
== Short Read (denovo) Assemblers == | == Short Read (denovo) Assemblers == | ||
* [http://www.ebi.ac.uk/~zerbino/velvet velvet ] | * [http://www.ebi.ac.uk/~zerbino/velvet velvet ] | ||
** velvet_1.2.08 (download src)([[NgsCctsBuildVelvet]]) | ** velvet_1.2.08 (download src)([[NgsCctsBuildVelvet]]) | ||
Revision as of 21:15, 9 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) [wiki:NgsCctsBuildBwa]
Short Read (denovo) Assemblers
- velvet
- velvet_1.2.08 (download src)(NgsCctsBuildVelvet)