DescriptionBowtie 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).
Available versions (Euler, old software stack)
|Legacy versions||Supported versions||New versions|
Environment modules (Euler, old software stack)
|Version||Module load command||Additional modules loaded automatically|
|1.1.1||module load gcc/4.8.2 bowtie/1.1.1|
How to submit a jobYou can submit a bowtie job in batch mode with the following command:
bsub [LSF options] "bowtie [bowtie options]"Here you need to replace [bowtie options] with bowtie command line options (please run bowtie -h for getting a list of all command line options) and [LSF options] with LSF parameters for the resource requirements of the job. Please find a documentation about the parameters of bsub on the wiki page about the batch system.