ldsc.rst

Ldsc

Introduction ~~~~~~~~ ldsc is a command line tool for estimating heritability and genetic correlation from GWAS summary statistics.

For more information, please check:
BioContainers: https://biocontainers.pro/tools/ldsc
Home page: https://github.com/bulik/ldsc

Versions

• 1.0.1

Commands ~~~~~~~ - ldsc.py - munge_sumstats.py

Module

You can load the modules by:

module load biocontainers
module load ldsc

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 ldsc on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=ldsc
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers ldsc