circexplorer2.rst

Circexplorer2

Introduction ~~~~~~~~ CIRCexplorer2 is a comprehensive and integrative circular RNA analysis toolset. It is the successor of CIRCexplorer with plenty of new features to facilitate circular RNA identification and characterization.

For more information, please check:
BioContainers: https://biocontainers.pro/tools/circexplorer2
Home page: https://github.com/YangLab/CIRCexplorer2

Versions

• 2.3.8

Commands ~~~~~~~ - CIRCexplorer2 - fast_circ.py - fetch_ucsc.py

Module

You can load the modules by:

module load biocontainers
module load circexplorer2

Example job ~~~~~ .. warning:: 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 circexplorer2 on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=circexplorer2
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers circexplorer2