Software: Dsuite
Description
Dsuite is a fast C++ implementation, allowing genome scale calculations of the D and f4-ratio statistics across all combinations of tens or hundreds of populations or species directly from a variant call format (VCF) file.
Available Versions
| Unspecified: | 0.4.r43 0.5.r44 |
|---|
For more information, please check its home page on Github.
Commands
- Dsuite
- dtools.py
- DtriosParallel
Module
You can load the modules by:
module load biocontainers
module load dsuite
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 Dsuite on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 4
#SBATCH --job-name=dsuite
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers dsuite
Dsuite Dtrios -c -n no_geneflow -t simulated_tree_no_geneflow.nwk chr1_no_geneflow.vcf.gz species_sets.txt