bio-annotation
Functional annotation and taxonomy inference from sequence homology.
npx skills add BioTender-max/awesome-bio-agent-skills --skill bio-annotation --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# Bio Annotation Functional annotation and taxonomy inference from sequence homology. ## Instructions 1. Read `docs/README.md` and the relevant tool guides before running anything. 2. When a nucleotide assembly, MAG, genome, or contig FASTA is available, run `/tracking-taxonomy-updates` first for the BBTools-container QuickClade `percontig` domain screen. Use that routing table to choose the right taxonomy/QC path before interpreting protein annotations. 3. For InterProScan, read `docs/interproscan-usage.md` and validate the exact CLI with `--help` or `--version`. Current stable is v5.77-108.0; InterProScan 6 (Nextflow-based) is a forward-looking migration target. 4. Run InterProScan for domain/family annotation. 5. Run eggNOG-mapper v2.1.13+ for orthology-based annotation. 6. Run sequence-vs-database search and resolve taxonomy with TaxonKit v0.20.0+ (required for the March 2025 NCBI rank update that replaces "superkingdom" with "domain" and adds "realm" for viruses). - Default CPU path: DIAMOND v2.1.20+. For any search against NCBI **nr**, prefer a clustered nr database (e.g., a `clusterednr` build under `$BIO_DB_ROOT`) — it is dramatically faster than full nr at comparable sensi
- Instructions
- Quick Reference
- Input Requirements
- Output
- Quality Gates
- Examples
- Example 1: Expected input layout
- Troubleshooting
What does the bio-annotation skill do?
Functional annotation and taxonomy inference from sequence homology.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill bio-annotation --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.