linghuichen

linghuichen's Stars

• pranz24/pytorch-soft-actor-critic

  PyTorch implementation of soft actor critic

  Language:Python816181

• MJ10/BioSeq-GFN-AL

  Code for "Biological Sequence Design with GFlowNets", 2022

  Language:Python7216

• lucidrains/chroma-pytorch

  Implementation of Chroma, generative models of protein using DDPM and GNNs, in Pytorch

  Language:Python15823

• RosettaCommons/PyRosetta.notebooks

  Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design

  Language:Jupyter Notebook489151

• Tongjilibo/bert4torch

  An elegent pytorch implement of transformers

  Language:Python1.2k155

• kad-ecoli/BeEM

  Conversion of PDBx/mmCIF files to best effort/minimal PDB files

  Language:C++161

• opendilab/awesome-AI-based-protein-design

  A collection of research papers for AI-based protein design

  22814

• facebookresearch/xformers

  Hackable and optimized Transformers building blocks, supporting a composable construction.

  Language:Python8.7k615

• JinyuanSun/DDGScan

  DDGScan: an integrated parallel workflow for the in silico point mutation scan of protein

  Language:Python4316

• JinyuanSun/mutation-stability-data

  172

• gersteinlab/ThermoNet

  ThermoNet is a computational method for quantitative prediction of the impact of single-point mutations on protein thermodynamic stability. The core algorithm of ThermoNet is an ensemble of deep 3D convolutional neural networks.

  Language:Python10820

• Loyalsoldier/clash-rules

  🦄️ 🎃 👻 Clash Premium 规则集(RULE-SET)，兼容 ClashX Pro、Clash for Windows 等基于 Clash Premium 内核的客户端。

  19.2k1.7k

• igashov/DiffLinker

  DiffLinker: Equivariant 3D-Conditional Diffusion Model for Molecular Linker Design

  Language:Python30244

• google-deepmind/alphatensor

  Language:Python2.7k237

• Shark-NLP/DiffuSeq

  [ICLR'23] DiffuSeq: Sequence to Sequence Text Generation with Diffusion Models

  Language:Python73289

• brianhie/efficient-evolution

  Efficient evolution from protein language models

  Language:Python17542

• aqlaboratory/rgn2

  Language:Python10129

• dptech-corp/flash-attention

  Fast and memory-efficient exact attention

  Language:C++104

• NVlabs/edm

  Elucidating the Design Space of Diffusion-Based Generative Models (EDM)

  Language:Python1.4k146

• microsoft/foldingdiff

  Diffusion models of protein structure; trigonometry and attention are all you need!

  Language:Jupyter Notebook51958

• aws-samples/lm-gvp

  LM-GVP: A Generalizable Deep Learning Framework for Protein Property Prediction from Sequence and Structure

  Language:Jupyter Notebook497

• KrishnaswamyLab/ReLSO-Guided-Generative-Protein-Design-using-Regularized-Transformers

  a Transformer-based neural network for generating highly optimized protein sequences called Regularized Latent Space Optimization (RELSO)

  Language:Jupyter Notebook8314

• CongLabCode/DPAM

  A domain parser for Alphafold models

  Language:Python327

• sacdallago/bio_embeddings

  Get protein embeddings from protein sequences

  Language:HTML46365

• Rostlab/VESPA

  VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5.

  Language:Python306

• J-SNACKKB/FLIP

  A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design

  Language:Jupyter Notebook9414

• DeepGraphLearning/PEER_Benchmark

  PEER Benchmark, appear at NeurIPS 2022 Dataset and Benchmark Track (https://arxiv.org/abs/2206.02096)

  Language:Python8210

• OATML-Markslab/Tranception

  Official repository for the paper "Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-time Retrieval"

  Language:Python13825

• diff-usion/Awesome-Diffusion-Models

  A collection of resources and papers on Diffusion Models

  Language:HTML11.1k950

• uw-ipd/RoseTTAFold2NA

  RoseTTAFold2 protein/nucleic acid complex prediction

  Language:Python33377