GRAPH-0

GRAPH-0's Stars

• meta-llama/llama3

  The official Meta Llama 3 GitHub site

  Language:Python27.2k2262643.1k

• outlines-dev/outlines

  Structured Text Generation

  Language:Python8.2k47553414

• evolutionaryscale/esm

  Language:Python1.3k2089153

• lucidrains/alphafold3-pytorch

  Implementation of Alphafold 3 from Google Deepmind in Pytorch

  Language:Python1.2k4755152

• willisma/SiT

  Official PyTorch Implementation of "SiT: Exploring Flow and Diffusion-based Generative Models with Scalable Interpolant Transformers"

  Language:Python69292738

• buoyancy99/diffusion-forcing

  code for "Diffusion Forcing: Next-token Prediction Meets Full-Sequence Diffusion"

  Language:Python61662329

• instadeepai/nucleotide-transformer

  🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

  Language:Python480215655

• louaaron/Score-Entropy-Discrete-Diffusion

  [ICML 2024 Best Paper] Discrete Diffusion Modeling by Estimating the Ratios of the Data Distribution (https://arxiv.org/abs/2310.16834)

  Language:Python40971238

• G-U-N/Phased-Consistency-Model

  [NeurIPS 2024] Boosting the performance of consistency models with PCM!

  Language:Python367192012

• lucidrains/mmdit

  Implementation of a single layer of the MMDiT, proposed in Stable Diffusion 3, in Pytorch

  Language:Python256335

• lucidrains/rectified-flow-pytorch

  Implementation of rectified flow and some of its followup research / improvements in Pytorch

  Language:Python1951035

• phbradley/alphafold_finetune

  Python code for fine-tuning AlphaFold to perform protein-peptide binding predictions

  Language:Python13781519

• apeterswu/Awesome-Bio-Foundation-Models

  A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.

  130609

• patrickbryant1/EvoBind

  In silico directed evolution of peptide binders with AlphaFold

  Language:Jupyter Notebook12672627

• aqlaboratory/genie2

  Protein structure diffusion model for unconditional protein generation and motif scaffolding

  Language:Python1248818

• ikalvet/heme_binder_diffusion

  Language:Python9421621

• HBioquant/DiffBindFR

  Diffusion model based protein-ligand flexible docking method

  Language:Python9161513

• masa-ue/RLfinetuning_Diffusion_Bioseq

  Code for the tutorial/review paper for RL-based-fine-tuniing. In this code, we especially focus on the design of biological sequences like DNA (enhancers) and RNA (UTRs) design.

  Language:Jupyter Notebook78304

• Wangchentong/Proteus

  Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.

  Language:Python70334

• BGI-SynBio/PyMOL-PUB

  Rapid generation of high-quality structure figures for publication with PyMOL-PUB

  Language:Python66122

• GBLille/MassiveFold

  Language:Python54398

• PeptoneLtd/proteinmpnn_ddg

  Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.

  Language:Python33114

• hugohrban/ProGen2-finetuning

  Finetuning ProGen2 protein language model for generation of protein sequences from selected protein families.

  Language:Python31157

• Immortals-33/Scaffold-Lab

  A comprehensive benchmark on the performances of multiple protein backbone generative models.

  Language:Python31244

• ml4bio/RiboDiffusion

  ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models

  Language:Python30415

• Doudna-lab/GARNET_DL

  Language:Python27300

• LPDI-EPFL/masif-neosurf

  MaSIF-neosurf: surface-based protein design for ternary complexes.

  Language:Python25433

• kiharalab/Distance-AF

  Public version for Distance-AF

  Language:Python17354

• autosome-ru/ArmNet

  Language:Python4400

• BioAI-Nexus/VFN

  Language:Python410