Software: Gffcompare
Description
Gffcompare is used to compare, merge, annotate and estimate accuracy of one or more GFF files.
Available Versions
| Unspecified: | 0.11.2 |
|---|
For more information, please check its website: https://biocontainers.pro/tools/gffcompare and its home page: https://ccb.jhu.edu/software/stringtie/gffcompare.shtml.
Commands
- gffcompare
Module
You can load the modules by:
module load biocontainers
module load gffcompare
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 Gffcompare on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=gffcompare
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers gffcompare
gffcompare -r annotation.gff transcripts.gtf