vv137

vv137's Stars

• forhaoliu/ringattention

  Transformers with Arbitrarily Large Context

  Language:Python57843

• pymc-devs/pytensor

  PyTensor allows you to define, optimize, and efficiently evaluate mathematical expressions involving multi-dimensional arrays.

  Language:Python30593

• pymc-devs/pymc

  Bayesian Modeling and Probabilistic Programming in Python

  Language:Python8.5k2k

• jax-md/jax-md

  Differentiable, Hardware Accelerated, Molecular Dynamics

  Language:Jupyter Notebook1.1k182

• lucidrains/flash-attention-jax

  Implementation of Flash Attention in Jax

  Language:Python18523

• ChengfeiYan/PPI_MSA-taxonomy_rank

  A program for generating paired MSAs for protein-protein interactions

  Language:Python8

• kyegomez/AlphaFold3

  Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch

  Language:Python63381

• seoklab/ComMat

  Community-based Deep Learning and Antibody H3 Loop Modeling

  Language:Python1

• OleHolmNielsen/Slurm_tools

  My tools for the Slurm HPC workload manager

  Language:Shell40586

• perrying/gumbel-sinkhorn

  PyTorch implementation of LEARNING LATENT PERMUTATIONS WITH GUMBEL-SINKHORN NETWORKS

  Language:Python208

• khornlund/pytorch-balanced-sampler

  PyTorch implementations of `BatchSampler` that under/over sample according to a chosen parameter alpha, in order to create a balanced training distribution.

  Language:Python838

• patrickbryant1/MoLPC

  Modelling of Large Protein Complexes

  Language:Jupyter Notebook338

• maovshao/PLMAlign

  PLMAlign utilizes per-residue embeddings as input to obtain specific alignments and more refined similarity

  Language:Jupyter Notebook143

• maovshao/PLMSearch

  PLMSearch enables accurate and fast homologous protein search with only sequences as input

  Language:Jupyter Notebook505

• lucidrains/alphafold3-pytorch

  Implementation of Alphafold 3 in Pytorch

  Language:Python70853

• tomnewport/mpm_api

  API Demonstration for MemProtMD

  Language:Jupyter Notebook81

• steineggerlab/foldseek

  Foldseek enables fast and sensitive comparisons of large structure sets.

  Language:C70893

• giacomo-janson/idpsam

  Generate intrinsically disordered peptide conformations via machine learning

  Language:Python101

• Rapptz/discord.py

  An API wrapper for Discord written in Python.

  Language:Python14.5k3.7k

• GBLille/AFmassive

  AlphaFold version that is extended to integrate diversity parameters for massive sampling.

  Language:Python21

• soedinglab/MMseqs2

  MMseqs2: ultra fast and sensitive search and clustering suite

  Language:C1.3k185

• GBLille/MassiveFold

  Language:Python195

• domdit/buleku

  An Online Manchu Dictionary

  Language:JavaScript6

• dauparas/ProteinMPNN

  Code for the ProteinMPNN paper

  Language:Jupyter Notebook880265

• clairemcwhite/vcmsa

  Language:Python264

• naver/roma

  RoMa: A lightweight library to deal with 3D rotations in PyTorch.

  Language:Python48118

• KinglittleQ/torch-batch-svd

  A 100x faster SVD for PyTorch⚡️

  Language:C++42335

• AndersJing/RaptorX-Single

  Language:Python143

• kiharalab/Distance-AF

  Public version for Distance-AF

  Language:Python144

• baker-laboratory/rf_diffusion_all_atom

  Public RFDiffusionAA repo

  Language:Python26033