samtools-bam-processing
byjaechang-hits· 57 skills
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.
How to install samtools-bam-processing?
jaechang-hits/sciagent-skills/samtools-bam-processing
$npx -y skills add jaechang-hits/sciagent-skills --skill samtools-bam-processingInstalls into the current project.
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Run `npx skills use "https://github.com/jaechang-hits/sciagent-skills" --skill "jaechang-hits/sciagent-skills/samtools-bam-processing"` and follow the generated skill instructions now. Read its complete output, redirecting it to a temporary file first if necessary. Resolve relative paths from the supporting-files directory it provides.
Use the skills in "https://github.com/jaechang-hits/sciagent-skills" that are relevant to the current task. Run `npx skills add "https://github.com/jaechang-hits/sciagent-skills"` and select the relevant skills, then follow their instructions.
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