About
pysam is a Python genomic file toolkit for reading, writing, and analyzing common bioinformatics formats like SAM/BAM/CRAM, VCF/BCF, and FASTA/FASTQ. Use it in NGS data pipelines to extract regions, calculate coverage, and perform pileup analysis with a Pythonic interface to htslib. It's essential for developers building variant calling, quality control, or sequencing analysis workflows.
Quick Install
Claude Code
Recommendednpx skills add overtimepog/AgentTheo -a claude-code/plugin add https://github.com/overtimepog/AgentTheogit clone https://github.com/overtimepog/AgentTheo.git ~/.claude/skills/pysamCopy and paste this command in Claude Code to install this skill
GitHub Repository
Frequently asked questions
What is the pysam skill?
pysam is a Claude Skill by overtimepog. Skills package instructions and resources that Claude loads on demand, so Claude can perform pysam-related tasks without extra prompting.
How do I install pysam?
Use the install commands on this page: add pysam to Claude Code as a plugin, or clone its repository into your skills directory, then restart Claude so it picks up the skill.
What category does pysam belong to?
pysam is in the Documentation category, tagged data.
Is pysam free to use?
Yes. pysam is listed on AIMCP and free to install. It runs inside Claude, so no separate service account is required to use the skill itself.
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