Bowtie
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Description
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Bowtie is an ultrafast, memory-efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end).
Bowtie is a part of the Tuxedo suite. Template:App Location
Available Versions
- 0.12.7 - Default.
- 2.2.0-beta3 - will become default when released as a final version.
Running the application using modules
To use bowtie with the environment modules system at HPC the following commands are available:
Get module information for bowtie:
$module spider bowtie
Load the default application module:
$module load bowtie
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_BOWTIE_DIR - directory where bowtie is located.
- HPC_BOWTIE_BIN - executable directory
- HPC_BOWTIE_DOC - documents directory
- HPC_BOWTIE_EX - examples directory
- HPC_BOWTIE_SCR - scripts directory