hic-pro
Link to section 'Introduction' of 'hic-pro' Introduction
Hicpro is an optimized and flexible pipeline for Hi-C data processing.
Docker hub: https://hub.docker.com/r/nservant/hicpro
Home page: https://github.com/nservant/HiC-Pro
Link to section 'Versions' of 'hic-pro' Versions
- 3.0.0
- 3.1.0
Link to section 'Commands' of 'hic-pro' Commands
- HiC-Pro
- digest_genome.py
- extract_snps.py
- hicpro2fithic.py
- hicpro2higlass.sh
- hicpro2juicebox.sh
- make_viewpoints.py
- sparseToDense.py
- split_reads.py
- split_sparse.py
Link to section 'Module' of 'hic-pro' Module
You can load the modules by:
module load biocontainers
module load hic-pro
Link to section 'Example job' of 'hic-pro' 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 hic-pro on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=hic-pro
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers hic-pro