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pysam

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

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Install

armory install pysam --cli claude

writes the skill into.claude/skills/pysam/SKILL.mdListed as compatible

Configuration
# fetches the source and writes it to:
.claude/skills/pysam/SKILL.md

Needs the armory CLI · not on npm yet, build it from cli/ in the repository

What it is

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

When to use it

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

How to install / invoke

# Copy the skill into your .claude/skills/ directory
curl -sL https://raw.githubusercontent.com/davila7/claude-code-templates/main/cli-tool/components/skills/scientific/pysam/SKILL.md -o .claude/skills/pysam/SKILL.md

Notes

Extracted from davila7/claude-code-templates, pysam category.