samtools-bam-processing
From the author
CLI toolkit for SAM/BAM/CRAM: sort, index, convert, filter, QC alignments. Core commands: view, sort, index, flagstat, stats, depth, markdup, merge. Required between alignment and variant/peak calling. Use pysam for Python-native BAM access; deeptools for normalized coverage tracks.
Install
npx skills add jaechang-hits/SciAgent-Skills --skill samtools-bam-processing -a claude-code
Installs to .claude/skills/samtools-bam-processing/ · Each command fetches the skill straight from GitHub with the open skills CLI.
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