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ab-bind-database

Antibody Binding Mutational Database

active-learning

alphaflow

AlphaFold Meets Flow Matching for Generating Protein Ensembles

alphafold

Open source code for AlphaFold.

annual-report-nic

antiberta

Public repository describing training and testing of AntiBERTa.

antibody-mutations

Assessing the impact of mutations on antibody-antigen binding affinity

antiref

AntiRef: reference clusters of human antibody sequences

azcourse_winter2022

consensus_design_pipeline

cudalbfgs

This is a cross-platform, CUDA-based C++ library for general-purpose, unconstrained nonlinear optimization on the GPU. It implements the L-BFGS (“Limited-memory Broyden-Fletcher-Goldfarb-Shanno“) method, a popular Quasi-Newton variant with a low memory footprint.

deepab

Deep learning models and structure realization scripts for the DeepAb antibody structure prediction method.

deepcov

Fully convolutional neural networks for protein residue-residue contact prediction

disvis

Visualisation of conformational space restriction by distance restraints

dmpfold

Extending genome-scale de novo protein modelling coverage using iterative deep learning-based prediction of structural constraints

dockq

DockQ is a single continuous quality measure for protein docked models based on the CAPRI evaluation protocol

equidock_public

EquiDock: geometric deep learning for fast rigid 3D protein-protein docking

equiformer-pytorch

Implementation of the Equiformer, SE3/E3 equivariant attention network that reaches new SOTA, and adopted for use by EquiFold for protein folding

fcc

Fraction of Common Contacts Clustering Algorithm for Protein Structures

flex_ddg_analysis

flex_ddg_tutorial

funfoldesdata

Rosetta FunFolDes – a general framework for the computational design of functional proteins.

gokit

Enabling energy landscape exploration of proteins

gordian_knot_tutorial

grc_2019

heal

icolos

Icolos: A workflow manager for structure based post-processing of de novo generated small molecules

idpgan

igfold

Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

immunebuilder

Predict the structure of immune receptor proteins