denizkavi

denizkavi's Stars

• Wublab/Pythia

  Structure-based self-supervised learning enables ultrafast prediction of stability changes upon mutations

  Language:Python333

• orbital-materials/orb-models

  ORB forcefield models from Orbital Materials

  Language:Python26126

• rs239/abmap

  Protein language model customized for antibodies

  Language:Jupyter Notebook11510

• SwitchLab-VIB/EvolveX

  EvolveX, a de novo antibody computational design pipeline.

  Language:Python7

• Gallicchio-Lab/AToM-OpenMM

  OpenMM-based framework for absolute and relative binding free energy calculations with the Alchemical Transfer Method

  Language:Python12630

• AI4PDLab/DPO_pLM

  Language:Python312

• bioinfowenz/AbnumPro

  Language:CSS22

• amelvim/antibody-diffusion-properties

  Guiding diffusion models for antibody sequence and structure co-design with developability properties.

  Language:Python303

• pengzhangzhi/ab_opt

  Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.

  Language:Python5410

• gjoni/trDesign

  trRosetta for protein design

  Language:Jupyter Notebook17734

• AIforGreatGood/biotransfer

  Machine learning-driven antibody design

  Language:Jupyter Notebook5415

• LPDI-EPFL/masif_seed

  Masif seed paper repository

  Language:Jupyter Notebook14034

• BioinfoMachineLearning/FlowDock

  Geometric Flow Matching for Generative Protein-Ligand Docking and Affinity Prediction (CASP16)

  Language:Python586

• BioinfoMachineLearning/MULTICOM4

  The MULTICOM4 protein structure prediction system developed by the Bioinformatics and Machine Learning Lab at the University of Missouri - Columbia

  Language:Python41

• huhlim/alphafold-multistate

  Language:Python339

• AbSciBio/igdesign

  Language:Python244

• browser-use/browser-use

  Make websites accessible for AI agents

  Language:Python13.1k1.1k

• Genentech/knotfold

  Language:Jupyter Notebook5

• bytedance/Protenix

  A trainable PyTorch reproduction of AlphaFold 3.

  Language:Python80066

• brineylab/abstar

  VDJ assignment and antibody sequence annotation. Scalable from a single sequence to billions of sequences.

  Language:Python4217

• flatironinstitute/DeepFRI

  Deep functional residue identification

  Language:Python31180

• pylelab/USalign

  Universal Structure Alignment of Monomeric and Complex Structure of Nucleic Acids and Proteins

  Language:C++11824

• TencentAI4S/IgGM

  Language:Python264

• wells-wood-research/drMD

  Molecular Dynamics for Experimentalists

  Language:Python241

• ddd9898/DeepNano

  Repository for paper Nanobody–antigen interaction prediction with ensemble deep learning and prompt-based protein language models.

  Language:Python242

• zml/zml

  Any model. Any hardware. Zero compromise. Built with @ziglang / @openxla / MLIR / @bazelbuild

  Language:Zig1.8k66

• pengzhangzhi/faplm

  FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models

  Language:Python1046

• jeffreyruffolo/AntiBERTy

  Antibody-specific masked language model

  Language:Python4213

• wukevin/tcr-bert

  Large language modeling applied to T-cell receptor (TCR) sequences.

  Language:Jupyter Notebook488

• ai4protein/Pro-Prime

  Language:Jupyter Notebook385