Sra toolkit 2.3.4

The Sequence Read Archive (SRA) stores raw sequence data from "next-generation" sequencing technologies including 454, IonTorrent, Illumina, SOLiD, Helicos and Complete Genomics. In addition to raw sequence data, SRA now stores alignment information in the form of read placements on a reference sequence.

SRA is NIH’s primary archive of high-throughput sequencing data and is part of the international partnership of archives (INSDC) at the NCBI, the European Bioinformatics Institute and the DNA Database of Japan. Data submitted to any of the three organizations are shared among them. SRA-toolkit can convert between SRA format and common formats such as fastq or SAM.

Module file

The module file can be found in this location:

 /cm/shared/modulefiles/SHARED/

<source lang='tcl'>

1. %Module1.0#######################################################################
   1. SRA Toolkit 2.3.4 modulefile

proc ModulesHelp { } {

       puts stderr "\tAdds SRA Toolkit 2.3.4 to your environment"

}

module-whatis "Adds SRA Toolkit 2.3.4 to your environment"

set sratoolkit_234_root /cm/shared/apps/SHARED/sra-toolkit/sratoolkit.2.3.4-2-centos_linux64/bin/

prepend-path PATH $sratoolkit_234_root

</source>

Package was downloaded as pre-compiled binaries for Centos-64bit

 http://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/2.3.4-2/sratoolkit.2.3.4-2-centos_linux64.tar.gz

See also

• Globally installed software
• ABGC specific modules

External links

• BWA manpage