sicer
Link to section 'Introduction' of 'sicer' Introduction
Sicer is a clustering approach for identification of enriched domains from histone modification ChIP-Seq data.
For more information, please check its website: https://biocontainers.pro/tools/sicer and its home page: http://home.gwu.edu/~wpeng/Software.htm.
Link to section 'Versions' of 'sicer' Versions
- 1.1
Link to section 'Commands' of 'sicer' Commands
- SICER-df-rb.sh
- SICER-df.sh
- SICER-rb.sh
- SICER.sh
Link to section 'Module' of 'sicer' Module
You can load the modules by:
module load biocontainers
module load sicer
Link to section 'Example job' of 'sicer' 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 Sicer on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=sicer
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers sicer
SICER.sh ./ test.bed control.bed . hg18 1 200 150 0.74 600 .01
SICER-rb.sh ./ test.bed . hg18 1 200 150 0.74 400 100