Alphafold Python Packages

gget

🧬 gget enables efficient querying of genomic reference databases

protspace

Explore protein language model embeddings in your browser — surface relationships sequence similarity misses, overlay annotations, and transfer labels (EAT). Nothing uploaded.

fast-trimul

A drop-in, hardware-agnostic library for Fused Triangle Multiplicative Updates across AlphaFold3-family models, powered by CUTLASS CuTe kernels.

protlabel

Explore protein language model embeddings in your browser — surface relationships sequence similarity misses, overlay annotations, and transfer labels (EAT). Nothing uploaded.

alphafold-sovereign-mcp

BioMed MCP over AlphaFold DB + 8 public sources, with SQLite knowledge graph, offline mode, and explicit clinical-use limits.

foldmetrics

Unified confidence metrics for structure-prediction models

alphafoldfetch

CLI for downloading AlphaFold structures using UniProt IDs or FASTA files

biomcp-server

🧬 BioMCP — bioinformatics MCP server: 83 tools · 43 databases · PubMed/NCBI/BLAST/PDB/UniProt/enrichment · `pip install biomcp-server` · 生信 MCP 服务器

alphafold3

Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch

rafm

Reliable AlphaFold Measures

proteinfp

End-to-end protein function prediction from structure alone: active sites, binding pockets, GO terms, PPI partners, and drug candidates.

foldrunner

All-vs-all protein structure-prediction panels with one alignment per sequence, for AlphaFold 3, Boltz-2, Protenix, Chai-1, ColabFold, AlphaFold2-Multimer, AlphaFold Server and SeedFold

invariant-attention

An implementation of Invariant Point Attention from Alphafold 2

ensemblify

Ensemblify is a computational tool that generates ensembles of intrinsically disordered regions from AlphaFold or user-defined models. It provides a user-friendly way to generate, analyze and reweight (against experimental data) ensembles, making it accessible to all members of the scientific community, independent of their programming expertise.

open-af3

Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch