alphafold2
There are 74 repositories under alphafold2 topic.
aqlaboratory/openfold
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
pachterlab/gget
🧬 gget enables efficient querying of genomic reference databases
hpcaitech/FastFold
Optimizing AlphaFold Training and Inference on GPU Clusters
martinpacesa/BindCraft
User friendly and accurate binder design pipeline
westlake-repl/SaProt
Saprot: Protein Language Model with Structural Alphabet (AA+3Di)
baaihealth/OpenComplex
Trainable PyTorch framework for developing protein, RNA and complex models.
dptech-corp/Uni-Fold-jax
Trainable AlphaFold implementation in JAX
Zuricho/ParallelFold
Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures
FreshAirTonight/af2complex
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
cbalbin-bio/pymol-color-alphafold
PyMOL extension to color AlphaFold structures by confidence (pLDDT).
soedinglab/MMseqs2-App
MMseqs2 app to run on your workstation or servers
nf-core/proteinfold
Protein 3D structure prediction pipeline
elttaes/Revisiting-PLMs
Exploring Evolution-aware & free protein language models as protein function predictors
instadeepai/FrameDiPT
FrameDiPT: an SE(3) diffusion model for protein structure inpainting
flyark/AFM-LIS
Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)
pengzhangzhi/Awesome-Computational-Structural-Biology
A curated list of awesome self-learning materials in Computational Structural Biology, such as sources, tutorials, etc.
lipan6461188/AlphaFold-StepByStep
Run AlphaFold2 (and multimer) step by step
aws-samples/aws-rosettafold
Infrastructure template and Jupyter notebooks for running RoseTTAFold on AWS Batch.
sbhakat/AF-cryptic-pocket
Cryptic pocket prediction using AlphaFold 2
ShahidIqb/PROST
A tool for predicting the effects of missense mutations on protein stability changes upon missense mutation using protein sequence only. PROST uses colab AlhpaFold2 for the prediction of pdb struture from FASTA sequence.
johnnytam100/AlphaCutter
This repository contains the AlphaCutter.py for the removal of non-globular regions from predicted protein structures.
colbyford/SARS-CoV-2_B.1.1.529_Spike-RBD_Predictions
AlphaFold2 and RoseTTAFold predictions of the SARS-CoV-2 B.1.1.529 variant Spike protein with HADDOCK antibody interactions
instadeepai/LightMHC
LightMHC: A Light Model for pMHC Structure Prediction with Graph Neural Networks
johnnytam100/awesome-protein-design
A curated list of awesome protein design research, software and resources.
Orpowell/alphafold-analyser
A tool to visualise the results of AlphaFold2 and inspect the quality of structural predictions
sb-ncbr/AlphaCharges
𝛂Charges: A tool for the quick calculation of partial atomic charges for protein structures from AlphaFoldDB
wudangt/awesome-molecular-modeling-and-drug-discovery
A curated list of awesome Molecular Modeling And Drug Discovery 🔥
Ojas-Singh/Re-Glyco
The Python software re-glycosylates protein structures using MD simulation results from the glycoshape database. It takes alphafold protein structures as input and outputs modified structures with glycans added at appropriate sites.
fmi-basel/GUIFold
GUI for running jobs with a local installation of AlphaFold2. Supports submission to queuing systems.
branchialspace/foldbender
protein graph representation
neftlon/af2-plddt-contextualized
AlphaFold 2's confidence scores put into context
Rishit-dagli/Invariant-Attention
An implementation of Invariant Point Attention from Alphafold 2
THU-ATOM/AIRFold
AIRFold Protein Structure Prediction System
MishterBluesky/Conservation-Colab
This Google colab notebook, allows for conservation analysis of user input genes, on their local machine. It relies on the MMSeq2 introduced by https://www.nature.com/articles/s41592-022-01488-1
sb-ncbr/FFFold
FFFold: A tool for the quick optimisation of protein structures from AlphaFold DB
tuftsdatalab/Intro_To_AlphaFold2
A Tufts Research Technology Workshop detailing how to use AlphaFold 2 on the Tufts HPC cluster