amsyuan

amsyuan's Stars

• sokrypton/ColabFold

  Making Protein folding accessible to all!

  Language:Jupyter Notebook2k49564507

• evo-design/evo

  Biological foundation modeling from molecular to genome scale

  Language:Jupyter Notebook1.2k2360150

• MinkaiXu/GeoDiff

  Implementation of GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation (ICLR 2022).

  Language:Python33863173

• Graylab/IgFold

  Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

  Language:Python334126662

• bjornwallner/DockQ

  DockQ is a single continuous quality measure for Protein, Nucleic Acids and Small Molecule Docking Models

  Language:Python23683753

• debbiemarkslab/DeepSequence

  A generative latent variable model for biological sequence families.

  Language:Python21016845

• Merck/BioPhi

  BioPhi is an open-source antibody design platform. It features methods for automated antibody humanization (Sapiens), humanness evaluation (OASis) and an interface for computer-assisted antibody sequence design.

  Language:Python160105745

• RosettaCommons/DeepAb

  Deep learning models and structure realization scripts for the DeepAb antibody structure prediction method.

  Language:Python151152629

• Graylab/IgLM

  Generative Language Modeling for Antibody Design

  Language:Python1304925

• TrinityCTAT/Trinity_CTAT

  11627334

• AbSciBio/unlocking-de-novo-antibody-design

  1054316

• wengong-jin/abdockgen

  Language:Python10521123

• prihoda/AbNumber

  Convenience Python APIs for antibody numbering using ANARCI

  Language:Python8631312

• alchemab/antiberta

  Public repository describing training and testing of AntiBERTa.

  Language:Jupyter Notebook5631013

• Merck/Sapiens

  Sapiens is a human antibody language model based on BERT.

  Language:Jupyter Notebook5010117

• brennanaba/ImmuneBuilder

  Predict the structure of immune receptor proteins

  Language:Jupyter Notebook4842938

• jeffreyruffolo/AntiBERTy

  Antibody-specific masked language model

  Language:Python381213

• RosettaCommons/Rosetta-DL

  A bundle of deep-learning packages for biomolecular structure prediction and design contributed to the Rosetta Commons

  33716

• RosettaCommons/FvHallucinator

  Language:Python25715

• nf-core/hgtseq

  A pipeline to investigate horizontal gene transfer from NGS data

  Language:Nextflow2415935

• shichence/ProtSeed

  Source code of the paper "Protein Sequence and Structure Co-Design with Equivariant Translation"

  Language:Python22220

• luwei0917/AlphaFold3_PPI

  Language:Jupyter Notebook14102

• TobiasHeOl/AbLang2

  An antibody-specific language model focusing on NGL prediction

  Language:Python14175

• TrinityCTAT/CTAT-VirusIntegrationFinder

  Language:Python137125

• 01life/ViromeFlowX

  Language:Perl80

• strauchlab/two-state-stabilization

  Language:Python5301

• Zechuan-Chen/scVDJplot

  This repository was used to store the code, which was used in "Single-cell Profiling Reveals Distinct Adaptive Immune Hallmarks in MDA5+ Dermatomyositis with Therapeutic Implications"

  Language:R52

• LeeBergstrand/Phylogenetic-Tree-Building

  A tool kit for extracting 16S rRNA genes from genomes for the purpose of building phylogenetic trees.

  Language:Python125

• sboyken/pHresponsiveOligomers

  data and scripts repository for manuscript

  1

• shenh2/fiber_design

  1