Plink2¶
Introduction¶
Plink2
is a whole genome association analysis toolset.
For more information, please check its website: https://biocontainers.pro/tools/plink2 and its home page on Github.
Versions¶
2.00a2.3
Commands¶
plink2
Module¶
You can load the modules by:
module load biocontainers
module load plink2
Example job¶
Warning
Using #!/bin/sh -l
as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash
instead.
To run Plink2 on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=plink2
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers plink2
plink2 --bfile HapMap_3_r3_1 --freq --out HapMap_3_r3_1_out