BGEN¶
A suite of tools to analyse binary GEN files.
BGEN is available as a module on Apocrita.
Usage¶
To run the default installed version of BGEN, simply load the bgen
module:
module load bgen
bgenix -help
Usage: bgenix <options>
...
For usage documentation, run bgenix -help.
The BGEN suite contains single threaded applications
All tools in the BGEN suite do not provide support for multi-threading so please only request 1 core in your submission scripts. Any additional cores requested will be unused and wasted.
Example job¶
Serial job¶
Here is an example job running on 1 core and 1GB of memory to build an index for the specified BGEN file:
#!/bin/bash
#$ -cwd
#$ -j y
#$ -pe smp 1
#$ -l h_rt=1:0:0
#$ -l h_vmem=1G
module load bgen
bgenix -g example.bgen -index