bwa-mem2-dna-aligner
90 / 100 · Low risk
Fine to try. Some of what it can do is expected: a coding skill usually runs build and test commands.
Fast short-read DNA aligner for WGS/WES/ChIP-seq. 2× faster BWA-MEM successor; outputs SAM/BAM with read group headers for GATK. Primary plus supplementary records for chimeric reads. Use STAR for RNA-seq splice-aware alignment; Bowtie2 is a comparable alternative.
What this skill can do
Runs commands on your computer
Sends data to these websites: github.com, ftp.ncbi.nlm.nih.gov, ftp.ebi.ac.uk
Install
Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.
if [ -e ~/.agents/skills/'bwa-mem2-dna-aligner' ] || [ -L ~/.agents/skills/'bwa-mem2-dna-aligner' ]; then echo 'A skill folder named bwa-mem2-dna-aligner already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/jaechang-hits/SciAgent-Skills' "$d" && git -C "$d" checkout --quiet '65d6ceb875e20b751ffb3a6d8ee19516558789e1' -- 'skills/genomics-bioinformatics/alignment/bwa-mem2-dna-aligner' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/genomics-bioinformatics/alignment/bwa-mem2-dna-aligner' ~/.agents/skills/'bwa-mem2-dna-aligner' && rm -rf "$d"; fi
Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'bwa-mem2-dna-aligner' ~/.claude/skills/'bwa-mem2-dna-aligner' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.
Badge for your README
[](https://zalavijaysinh.github.io/skilltrust/repos/jaechang-hits/SciAgent-Skills/)
Score history
| Date | Version | Score |
|---|---|---|
| 2026-11-07 | 65d6ceb | 100 |