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alterlab-biopython
AlterLab-IEU/AlterLab-Academic-SkillsSkill
Manipulate biological sequences, parse FASTA/GenBank/PDB files, run phylogenetics, and access NCBI/PubMed programmatically via Biopython (Bio.SeqIO, Bio.Entrez, Bio.PDB, Bio.Blast). Use when scripting custom bioinformatics pipelines, batch-processing sequence files, automating BLAST, or fetching records from Entrez — for quick one-off database lookups use gget, for unified multi-service integration use bioservices. Part of the AlterLab Academic Skills suite.
Why this score
This repo hosts 10 skills, so its 76 stars are split between them (about 8 each) for scoring.
Popularity score: 55/100 from public GitHub signals only. It shows how widely used and maintained this is, not how well it works. Not included yet: the fake-star check. The security scan is shown separately and doesn't change the score. How we rank
Security
Scanned Oct 20, 2026 at commit e4836c08a20d, with Cisco's open-source skill-scanner.
What its code does:
- Runs shell commands Common for dev tools. Read the commands it runs.references/alignment.md:282, references/blast.md:192 and 4 more
A scan lists patterns in the code. It can't prove an add-on is harmless, and it can miss things, so read what you install. How we scan
Alternatives
Other makers' add-ons that do the same job, next to this one.
| Name | Score | Stars | Context | Updated |
|---|---|---|---|---|
| This onealterlab-biopython AlterLab-IEU/AlterLab-Academic-Skills · Skill | 55 | ★ 76 | ≈120 always | 21d ago |
| biopython synthetic-sciences/openscience · Skill Same job: research & papers | 75 | ★ 4.1k | ≈83 always | 17d ago |
| biology-biopython aiming-lab/AutoResearchClaw · Skill Same job: databases | 77 | ★ 15k | ≈47 always | 3mo ago |