Software: ngsLD
Description
ngsLD is a program to estimate pairwise linkage disequilibrium (LD) taking the uncertainty of genotype's assignation into account. It does so by avoiding genotype calling and using genotype likelihoods or posterior probabilities.
Available Versions
| Unspecified: | 1.1.1 |
|---|
Home page: https://github.com/fgvieira/ngsLD
Commands
- ngsLD
Module
You can load the modules by:
module load biocontainers
module load ngsld
Example job
Using
#!/bin/sh -las shebang in the slurm job script will cause the failure of some biocontainer modules. Please use#!/bin/bashinstead.
To run ngsld on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=ngsld
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers ngsld