npm

picard-tools

Tools for manipulating HTS data and formats (SAM, BAM, VCF)

brewmacoslinux
Try with needOr install directly
Source

About

Tools for manipulating HTS data and formats

Commands

picard

Examples

Convert SAM file to BAM format$ picard SamFormatConverter INPUT=input.sam OUTPUT=output.bam
Mark duplicate reads in a BAM file$ picard MarkDuplicates INPUT=input.bam OUTPUT=marked.bam METRICS_FILE=metrics.txt
Validate SAM/BAM file format and integrity$ picard ValidateSamFile INPUT=input.bam MODE=SUMMARY