protein
There are 588 repositories under protein topic.
biopython/biopython
Official git repository for Biopython (originally converted from CVS)
a-r-j/graphein
Protein Graph Library
BradyAJohnston/MolecularNodes
Toolbox for molecular animations in Blender, powered by Geometry Nodes.
martinpacesa/BindCraft
User friendly and accurate binder design pipeline
salesforce/progen
Official release of the ProGen models
microsoft/foldingdiff
Diffusion models of protein structure; trigonometry and attention are all you need!
flowhub-team/awesome-omics
A collection of awesome things regarding all omics.
westlake-repl/SaProt
Saprot: Protein Language Model with Structural Alphabet (AA+3Di)
prody/ProDy
A Python Package for Protein Dynamics Analysis
mdshw5/pyfaidx
Efficient pythonic random access to fasta subsequences
haddocking/pdb-tools
A dependency-free cross-platform swiss army knife for PDB files.
lightdock/lightdock
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
OATML-Markslab/ProteinGym
Official repository for the ProteinGym benchmarks
HICAI-ZJU/Scientific-LLM-Survey
Scientific Large Language Models: A Survey on Biological & Chemical Domains
Lattice-Automation/seqviz
a JavaScript DNA, RNA, and protein sequence viewer
zjunlp/Mol-Instructions
[ICLR 2024] Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language Models
AngelRuizMoreno/Jupyter_Dock
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.
debbiemarkslab/EVcouplings
Evolutionary couplings from protein and RNA sequence alignments
fogleman/ribbon
Ribbon diagrams of proteins in #golang.
opendilab/awesome-AI-based-protein-design
A collection of research papers for AI-based protein design
a-r-j/ProteinWorkshop
Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models and training/task utilities. (ICLR 2024)
beautiful-atoms/beautiful-atoms
Python module for drawing and rendering beautiful atoms and molecules using Blender.
PeptoneLtd/dspp-keras
Protein order and disorder data for Keras, Tensor Flow and Edward frameworks with automated update cycle made for continuous learning applications.
ncbi/icn3d
web-based protein structure viewer and analysis tool interactively or in batch mode
chao1224/ChatDrug
LLM for Drug Editing, ICLR 2024
Shen-Lab/DeepAffinity
Protein-compound affinity prediction through unified RNN-CNN
zjunlp/OntoProtein
[ICLR 2022] OntoProtein: Protein Pretraining With Gene Ontology Embedding
biologyguy/BuddySuite
Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
flatironinstitute/deepblast
Neural Networks for Protein Sequence Alignment
bio4j/bio4j
Bio4j abstract model and general entry point to the project
DeepRank/Deeprank-GNN
Graph Network for protein-protein interface
malllabiisc/ProteinGCN
ProteinGCN: Protein model quality assessment using Graph Convolutional Networks
ml4bio/Dense-Homolog-Retrieval
Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval
Rostlab/SeqVec
Modelling the Language of Life - Deep Learning Protein Sequences
jgreener64/mmterm
View proteins and trajectories in the terminal
molstar/VSCoding-Sequence
VSCode Extension for interactively visualising protein structure data in the editor