Software: KisSplice2RefGenome
Description
KisSplice can also be used when a reference (annotated) genome is available, in order to annotate the variants found and help prioritize cases to validate experimentally. In this case, the results of KisSplice are mapped to the reference genome, using for instance STAR, and the mapping results are analysed using KisSplice2RefGenome.
Available Versions
| Unspecified: | 2.0.8 |
|---|
Docker hub: https://hub.docker.com/r/dwishsan/kissplice-pipeline
Home page: https://kissplice.prabi.fr
Commands
- kissplice2refgenome
Module
You can load the modules by:
module load biocontainers
module load kissplice2refgenome
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 kissplice2refgenome on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=kissplice2refgenome
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers kissplice2refgenome