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The Top 23 Protein Structure Open Source Projects

Open source projects categorized as Protein Structure
Categories > Protein Structure
Biopython ⭐ 3,918
Official git repository for Biopython (originally converted from CVS)
dependent packages 1,373total releases 58most recent commit 4 months agopypi biopython} Downloads
Openfold ⭐ 2,235
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
total releases 1most recent commit 4 months ago
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29most recent commit 4 months agopypi graphein} Downloads
Molecularnodes ⭐ 729
Toolbox for molecular animations in Blender, powered by Geometry Nodes.
dependent packages 1total releases 5most recent commit 4 months agopypi molecularnodes} Downloads
Biopandas ⭐ 673
Working with molecular structures in pandas DataFrames
dependent packages 20total releases 20most recent commit 8 months agopypi biopandas} Downloads
Proteinnet ⭐ 623
Standardized data set for machine learning of protein structure
most recent commit 3 years ago
Biojava ⭐ 564
📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.
dependent packages 16total releases 56most recent commit 4 months ago
Foldseek ⭐ 545
Foldseek enables fast and sensitive comparisons of large structure sets.
most recent commit 4 months ago
Fastfold ⭐ 485
Optimizing AlphaFold Training and Inference on GPU Clusters
most recent commit 10 months ago
Hh Suite ⭐ 429
Remote protein homology detection suite.
most recent commit a year ago
Bio_embeddings ⭐ 357
Get protein embeddings from protein sequences
total releases 1most recent commit a year ago
Tape ⭐ 348
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
dependent packages 3total releases 5most recent commit 3 years agopypi tape-proteins} Downloads
Molly.jl ⭐ 344
Molecular simulation in Julia
most recent commit 4 months ago
Equibind ⭐ 321
EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein
most recent commit 2 years ago
Uni Fold ⭐ 320
An open-source platform for developing protein models beyond AlphaFold.
most recent commit 4 months ago
Plip ⭐ 320
Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Adasme et al. (2021), https://doi.org/10.1093/nar/gkab294
dependent packages 1total releases 25most recent commit 9 months agopypi plip} Downloads
Rgn ⭐ 263
Recurrent Geometric Networks for end-to-end differentiable learning of protein structure
most recent commit 5 years ago
Pypdb ⭐ 258
A Python API for the RCSB Protein Data Bank (PDB)
dependent packages 5total releases 18most recent commit 10 months agopypi pypdb} Downloads
Sidechainnet ⭐ 256
An all-atom protein structure dataset for machine learning.
dependent packages 4total releases 11most recent commit a year agopypi sidechainnet} Downloads
Lightdock ⭐ 234
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
most recent commit 4 months ago
Jupyter_dock ⭐ 215
Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.
most recent commit 9 months ago
Ligan ⭐ 206
Deep generative models of 3D grids for structure-based drug discovery
most recent commit a year ago
Protein Sequence Embedding Iclr2019 ⭐ 203
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
most recent commit 3 years ago
The 10 Most Depended On Protein Structure Open Source Projects
Biopython ⭐ 3,918
Official git repository for Biopython (originally converted from CVS)
dependent packages 1,373total releases 58latest release February 13, 2023most recent commit 4 months agopypi biopython} Downloads
Gemmi ⭐ 180
macromolecular crystallography library and utilities
dependent packages 41total releases 48latest release December 13, 2023most recent commit 4 months agopypi gemmi} Downloads
Biopandas ⭐ 673
Working with molecular structures in pandas DataFrames
dependent packages 20total releases 20latest release August 28, 2023most recent commit 8 months agopypi biopandas} Downloads
Pypdb ⭐ 258
A Python API for the RCSB Protein Data Bank (PDB)
dependent packages 5total releases 18latest release July 24, 2023most recent commit 10 months agopypi pypdb} Downloads
Sidechainnet ⭐ 256
An all-atom protein structure dataset for machine learning.
dependent packages 4total releases 11latest release November 02, 2023most recent commit a year agopypi sidechainnet} Downloads
Molart ⭐ 31
MOLeculAR structure annoTator
dependent packages 2total releases 39latest release November 14, 2022most recent commit 7 months agonpm molart} Downloads
Stmol ⭐ 152
This is the repository for the Stmol project, a Streamlit component that uses py3Dmol to render molecules.
dependent packages 2total releases 6latest release August 12, 2022most recent commit 5 months agopypi stmol} Downloads
The 10 Latest Releases In Protein Structure Open Source Projects
Gemmi ⭐ 180
macromolecular crystallography library and utilities
dependent packages 41total releases 48latest release December 13, 2023most recent commit 4 months agopypi gemmi} Downloads
Molecularnodes ⭐ 729
Toolbox for molecular animations in Blender, powered by Geometry Nodes.
dependent packages 1total releases 5latest release December 05, 2023most recent commit 4 months agopypi molecularnodes} Downloads
Sidechainnet ⭐ 256
An all-atom protein structure dataset for machine learning.
dependent packages 4total releases 11latest release November 02, 2023most recent commit a year agopypi sidechainnet} Downloads
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29latest release October 27, 2023most recent commit 4 months agopypi graphein} Downloads
Biopandas ⭐ 673
Working with molecular structures in pandas DataFrames
dependent packages 20total releases 20latest release August 28, 2023most recent commit 8 months agopypi biopandas} Downloads
Mdciao ⭐ 26
mdciao: Analysis of Molecular Dynamics Simulations Using Residue Neighborhoods
total releases 10latest release August 08, 2023most recent commit 4 months ago
Packman ⭐ 28
PACKMAN: PACKing and Motion ANalysis
total releases 35latest release August 03, 2023most recent commit 4 months ago
Pypdb ⭐ 258
A Python API for the RCSB Protein Data Bank (PDB)
dependent packages 5total releases 18latest release July 24, 2023most recent commit 10 months agopypi pypdb} Downloads
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