JinyuanSun

PymolFold

Protein folding in Pymol

DDGScan

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

gemma-chinese

Finetune Gemma for Chinese

ChatEnzyme

Ask anything about enzymes

Computational-tools-for-protein-design

A maintained list of tools for computational protein design

jinyuansun

evo

DNA foundation modeling from molecular to genome scale

MSAddG

pdbrefold

alpaca-lora

Instruct-tune LLaMA on consumer hardware

alphafold-peptide-receptors

Identifying peptide-receptor interactions using AlphaFold-Multimer

autoMD-gmx

automated simple MD with gromacs

ConPLex_dev

consistency_models

Official repo for consistency models.

GraDe_IF

Graph Denoising Diffusion for Inverse Protein Folding(NeurIPS 2023)

localpdb

Python package to manage protein structures and their annotations

OpenBioMed

papers_for_protein_design_using_DL

List of papers about Proteins Design using Deep Learning

progen2_trainings

train/(Lora)fine-tine progen2

PromoterCalculator

PromoterCalculator from Salis lab

promotor_mlflow

pyvenn

Python module for plotting Venn diagrams of 2..6 sets

RFamLlama

A pretrained LM for RNA

RITA_from_0

Rosetta2Go

Package Rosetta in Docker and Singularity with MPI supported.

Score-Entropy-Discrete-Diffusion

Discrete Diffusion Modeling by Estimating the Ratios of the Data Distribution (https://arxiv.org/abs/2310.16834)

SecretoGen

preliminary code for SecretoGen. Work in progress.

streamlit-80

streamlit-based web APP for -80 storage

Uni-Fold

An open-source platform for developing protein models beyond AlphaFold.

UniKP