mirtop
Link to section 'Introduction' of 'mirtop' Introduction
Mirtop is a ommand line tool to annotate with a standard naming miRNAs e isomiRs.
BioContainers: https://biocontainers.pro/tools/mirtop
Home page: https://github.com/miRTop/mirtop
Link to section 'Versions' of 'mirtop' Versions
- 0.4.25
Link to section 'Commands' of 'mirtop' Commands
- mirtop
Link to section 'Module' of 'mirtop' Module
You can load the modules by:
module load biocontainers
module load mirtop
Link to section 'Example job' of 'mirtop' 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 mirtop on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=mirtop
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers mirtop
mirtop gff --format prost --sps hsa
--hairpin examples/annotate/hairpin.fa \
--gtf examples/annotate/hsa.gff3 \
-o test_out \
examples/prost/prost.example.txt