bio-local-blast

80 / 100 · Low risk

Fine to try.

By lilinji/GeneTind-Life-Skills (GitHub) · data · 17 stars · scanned at commit 908229c

Build local BLAST databases and run searches using NCBI BLAST+ command-line tools. Use when running >50 queries, building custom databases with -parse_seqids and -taxid, downloading prebuilt NCBI databases via update_blastdb.pl, choosing -task variants (megablast/dc-megablast/blastn/blastn-short), tuning soft/hard masking, scaling threads, or extracting hits with blastdbcmd. Encodes BLAST v5 vs v4 database format, taxonomy filtering, makeblastdb pitfalls.

Works with any agent that supports SKILL.md skills.

What this skill can do

Runs commands on your computer

The author does not mention this.

Found in 14 places.

skills/bio-local-blast/SKILL.md, line 31conda install -c bioconda blast
skills/bio-local-blast/SKILL.md, line 72makeblastdb -in reference.fasta -dbtype nucl \
skills/bio-local-blast/SKILL.md, line 135blastn -query q.fa -db db -outfmt "6 qseqid sseqid pident length qcovs qcovhsp evalue bitscore staxids sscinames stitle"

Show 11 more

skills/bio-local-blast/SKILL.md, line 148update_blastdb.pl --showall pretty | grep -E 'refseq|swissprot|nt|nr'
skills/bio-local-blast/SKILL.md, line 182REF=reference_proteins.fasta
skills/bio-local-blast/SKILL.md, line 206blastn -query mouse_cdna.fa -db human_refseq_rna \
skills/bio-local-blast/SKILL.md, line 218blastn -query primers.fa -db genome_db \
skills/bio-local-blast/SKILL.md, line 230blastp -query query.fa -db nr \
skills/bio-local-blast/SKILL.md, line 244cut -f2 top_hit_per_query.tsv | sort -u > hit_accessions.txt
skills/bio-local-blast/SKILL.md, line 256blastp -query A.fa -db B_db -outfmt 6 -evalue 1e-5 -num_threads 8 \
skills/bio-local-blast/SKILL.md, line 279out = subprocess.run([name, '-version'], capture_output=True, text=True)
skills/bio-local-blast/SKILL.md, line 290subprocess.run(cmd, check=True)
skills/bio-local-blast/examples/blast_wrapper.py, line 19r = subprocess.run(cmd, capture_output=True, text=True)
skills/bio-local-blast/examples/blast_wrapper.py, line 36r = subprocess.run(cmd, capture_output=True, text=True)

Downloads and installs other software

The author does not mention this.

Found in 2 places.

skills/bio-local-blast/SKILL.md, line 34brew install blast
skills/bio-local-blast/SKILL.md, line 37sudo apt install ncbi-blast+

Install

Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.

if [ -e ~/.agents/skills/'bio-local-blast' ] || [ -L ~/.agents/skills/'bio-local-blast' ]; then echo 'A skill folder named bio-local-blast already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/lilinji/GeneTind-Life-Skills' "$d" && git -C "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-local-blast' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-local-blast' ~/.agents/skills/'bio-local-blast' && 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/'bio-local-blast' ~/.claude/skills/'bio-local-blast' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

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Score history

Date	Version	Score
2026-11-11	`908229c`	80