Genomescope2¶
Introduction¶
Genomescope2
: Reference-free profiling of polyploid genomes.
For more information, please check its website: https://biocontainers.pro/tools/genomescope2 and its home page on Github.
Versions¶
2.0
Commands¶
genomescope2
Module¶
You can load the modules by:
module load biocontainers
module load genomescope2
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 Genomescope2 on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=genomescope2
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers genomescope2
wget https://raw.githubusercontent.com/schatzlab/genomescope/master/analysis/real_data/ara_F1_21.hist
genomescope2 -i ara_F1_21.hist -o output -k 21