ngsld
Link to section 'Introduction' of 'ngsld' Introduction
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.
Home page: https://github.com/fgvieira/ngsLD
Link to section 'Versions' of 'ngsld' Versions
- 1.1.1
Link to section 'Commands' of 'ngsld' Commands
- ngsLD
Link to section 'Module' of 'ngsld' Module
You can load the modules by:
module load biocontainers
module load ngsld
Link to section 'Example job' of 'ngsld' Example job
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 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