AlterLab AlphaFold DB
Skill Verifiziert AktivAccess AlphaFold 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology. Part of the AlterLab Academic Skills suite.
To enable researchers to easily access, download, and analyze AI-predicted protein structures from the AlphaFold database for applications in drug discovery and structural biology.
Funktionen
- Retrieve AlphaFold structures by UniProt ID
- Download PDB/mmCIF coordinate files
- Analyze pLDDT and PAE confidence metrics
- Access bulk data via Google Cloud
- Integrate with Biopython for structural analysis
Anwendungsfälle
- Investigating protein structures for drug discovery targets
- Analyzing confidence metrics of predicted structures
- Integrating AlphaFold data into computational biology pipelines
- Downloading large datasets of protein structures for research
Nicht-Ziele
- Predicting new protein structures
- Experimental structure determination
- Performing complex molecular dynamics simulations
Praktiken
- Bioinformatics data access
- Structural biology analysis
Voraussetzungen
- Python 3.8+
- Biopython library
- Requests library
Trust
- info:Issues AttentionThere are 2 open issues and 0 closed issues in the last 90 days, indicating low current activity but also a small number of issues.
Installation
npx skills add AlterLab-IEU/AlterLab-Academic-SkillsFührt das Vercel skills CLI (skills.sh) via npx aus — benötigt Node.js lokal und mindestens einen installierten skills-kompatiblen Agent (Claude Code, Cursor, Codex, …). Setzt voraus, dass das Repo dem agentskills.io-Format folgt.
Qualitätspunktzahl
VerifiziertVertrauenssignale
Ähnliche Erweiterungen
AlterLab PDB Access
99Access RCSB PDB for 3D protein/nucleic acid structures. Search by text/sequence/structure, download coordinates (PDB/mmCIF), retrieve metadata, for structural biology and drug discovery. Part of the AlterLab Academic Skills suite.
Medchem
99Medicinal chemistry filters. Apply drug-likeness rules (Lipinski, Veber), PAINS filters, structural alerts, complexity metrics, for compound prioritization and library filtering.
PyDESeq2
100Differential gene expression analysis (Python DESeq2). Identify DE genes from bulk RNA-seq counts, Wald tests, FDR correction, volcano/MA plots, for RNA-seq analysis.
AlterLab Benchling Integration
100Part of the AlterLab Academic Skills suite. Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.
Open Targets Platform Query Skill
100Query Open Targets Platform for target-disease associations, drug target discovery, tractability/safety data, genetics/omics evidence, known drugs, for therapeutic target identification. Part of the AlterLab Academic Skills suite.
Embedding Strategies
100Select and optimize embedding models for semantic search and RAG applications. Use when choosing embedding models, implementing chunking strategies, or optimizing embedding quality for specific domains.