Official git repository for Biopython (originally converted from CVS)
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Updated
Jun 10, 2024 - Python
Official git repository for Biopython (originally converted from CVS)
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.
Standardized data set for machine learning of protein structure
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
Remote protein homology detection suite.
Protein Graph Library
Working with molecular structures in pandas DataFrames
EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein
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
Foldseek enables fast and sensitive comparisons of large structure sets.
Recurrent Geometric Networks for end-to-end differentiable learning of protein structure
Toolbox for molecular animations in Blender, powered by Geometry Nodes.
Optimizing AlphaFold Training and Inference on GPU Clusters
A Python API for the RCSB Protein Data Bank (PDB)
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
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.
Get protein embeddings from protein sequences
An open-source platform for developing protein models beyond AlphaFold.
A PyTorch framework for prediction of tertiary protein structure
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