NgsCcts

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(in process)
(Short Read Aligners)
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== Short Read Aligners ==
 
== Short Read Aligners ==
 
+
* [ tophat]
 +
** tophat-2.0.6 [http://tophat.cbcb.umd.edu/downloads/tophat-2.0.6.Linux_x86_64.tar.gz (binary)]
 
* [http://bowtie-bio.sourceforge.net bowtie]
 
* [http://bowtie-bio.sourceforge.net bowtie]
 
** bowtie-0.12.7 (linked from Galaxy)
 
** bowtie-0.12.7 (linked from Galaxy)
 +
** bowtie-0.12.8 [http://downloads.sourceforge.net/project/bowtie-bio/bowtie/0.12.8/bowtie-0.12.8-linux-x86_64.zip?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fbowtie-bio%2Ffiles%2Fbowtie%2F0.12.8%2F (binary)]
 
* [http://bowtie-bio.sourceforge.net/bowtie2 bowtie2]
 
* [http://bowtie-bio.sourceforge.net/bowtie2 bowtie2]
 
** 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)]

Revision as of 10:39, 5 November 2012

Contents

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

Microbiome

Alignment Visualization

Short Read Aligners

Short Read (denovo) Assemblers

in process

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