cegma
Link to section 'Introduction' of 'cegma' Introduction
CEGMA (Core Eukaryotic Genes Mapping Approach) is a pipeline for building a set of high reliable set of gene annotations in virtually any eukaryotic genome.
Docker hub: https://hub.docker.com/r/chrishah/cegma
Home page: https://github.com/KorfLab/CEGMA_v2
Link to section 'Versions' of 'cegma' Versions
- 2.5
Link to section 'Commands' of 'cegma' Commands
- cegma
Link to section 'Module' of 'cegma' Module
You can load the modules by:
module load biocontainers
module load cegma
Link to section 'Example job' of 'cegma' 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 cegma on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=cegma
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers cegma
cegma --genome genome.fasta -o output