Bowtie
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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). It supports alignment policies equivalent to Maq and SOAP but is substantially faster.
A Bowtie tutorial is available here: http://bowtie-bio.sourceforge.net/tutorial.shtml
The following Modules files should be loaded for this package:
module load bowtie/bowtie-0.10