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protein-complexes

Here are 13 public repositories matching this topic...

debbiemarkslab / EVcouplings

Evolutionary couplings from protein and RNA sequence alignments

protein structure-prediction 3d-structure protein-complexes

Updated Oct 23, 2025
Jupyter Notebook

af2complex

FreshAirTonight / af2complex

Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.

bioinformatics deep-learning protein-protein-interaction protein-structure-prediction protein-protein-docking protein-complexes alphafold2

Updated Sep 8, 2024
Python

sigven / oncoEnrichR

Explore the cancer relevance of your gene list

cancer proteins disease-gene-association tcga-data crispr-target protein-protein-interaction co-expression report-generator prioritization genesets high-throughput-screening cancer-survival functional-enrichment-analysis pathway-enrichment-analysis protein-complexes tissue-enrichment-analysis cancer-hallmark-evidence

Updated Dec 17, 2025
R

kliment-olechnovic / ftdmp

FTDMP is a software system for running docking experiments and scoring/ranking multimeric models.

bioinformatics protein-structure protein-complexes

Updated Oct 20, 2025
C++

nkurzaw / Rtpca

R package for performing (differential) thermal co-aggregation analysis with TPP datasets

r-package protein-protein tpp protein-complexes

Updated Sep 18, 2025
R

Model3DBio / AF_pyDock

🧬 Integrates AlphaFold2/3 model confidence with ⚡ pyDock energy scoring to enhance protein–protein complex prediction accuracy. 📦 Includes workflows for generating diverse AF2-Multimer models, 🔍 computing pyDock energies, and 🔗 combining both via z-score normalization to produce robust, prioritized complex structures.

machine-learning bioinformatics structural-biology computational-biology scoring-functions molecular-modeling protein-complexes protein-protein-interactions alphafold pydock alphafold2 colabfold alphafold3

Updated Nov 26, 2025
Jupyter Notebook

wasineer-dev / braid

Predict protein complexes from high-throughput data

python clustering proteins markov-random-field protein-protein-interaction protein-complexes

Updated Sep 26, 2023
Python

marcottelab / super.complex_website_humap

Interactive visualizations for protein complexes from hu.MAP 1.0 and hu.MAP 2.0 by Super.Complex and CORUM

community-detection supervised-machine-learning protein-protein-interaction-network protein-complexes protein-protein-interactions protein-complex-identification

Updated Jul 3, 2022
HTML

marcottelab / RL_complex_detection

Reinforcement learning community detection method using known communities

reinforcement-learning community-detection community-detection-algorithm protein-protein-interaction-network protein-complexes

Updated Aug 3, 2022
Python

marcottelab / RL_humap_prediction

Interactive visualizations for protein complexes from hu.MAP 1.0 and hu.MAP 2.0 with RL

reinforcement-learning community-detection protein-protein-interaction-network protein-complexes protein-protein-interactions protein-complex-identification

Updated Jun 22, 2022
HTML

bio2bel / complexportal

Nomenclature and definitions of protein complexes in BEL

proteins terminology biological-expression-language protein-complexes

Updated Apr 29, 2019
Python

bio2bel / famplex

Convert FamPlex to BEL

ontology terminology biological-expression-language protein-families protein-complexes

Updated Aug 13, 2019
Python

SlavovLab / nPOP

Code for the research article "Exploring functional protein covariation across single cells using nPOP". It is distributed under MIT license.

regulation gene-regulation proteomics sample-preparation single-cell-proteomics protein-complexes single-cell-ananlysis

Updated Dec 27, 2022
R

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