picard
Link to section 'Description' of 'picard' Description
Picard is a set of command line tools for manipulating high-throughput sequencing HTS data and formats such as SAM/BAM/CRAM and VCF.
Link to section 'Versions' of 'picard' Versions
- Anvil: 2.25.7
Link to section 'Commands' of 'picard' Commands
- picard
Link to section 'Module' of 'picard' Module
You can load the modules by:
module load picard
Link to section 'Example job' of 'picard' Example job
To run picard our our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 20:00:00
#SBATCH -N 1
#SBATCH -n 24
#SBATCH --job-name=picard
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module load picard
picard BuildBamIndex -Xmx64g I=19P0126636WES_sorted_md.bam
picard CreateSequenceDictionary -R hg38.fa -O hg38.dict