martinez-zacharya Goto Github PK

diffdock

Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking

diffdock-pp

Implementation of DiffDock-PP: Rigid Protein-Protein Docking with Diffusion Models in PyTorch (ICLR 2023 - MLDD Workshop)

esm

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

evodiff

Generation of protein sequences and evolutionary alignments via discrete diffusion models

fast

Fusion models for Atomic and molecular STructures (FAST)

geodock

Flexible Protein-Protein Docking with a Multi-Track Iterative Transformer.

ligandmpnn

lightdock

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

martinez-zacharya

Personal Website

mop-up

A pipeline that constructs bipartite protein-sharing networks for bacteriophages to analyze host-range, taxonomy and horizontal gene transfer.

pafnucy_weights

protein_gibbs_sampler

Gibbs sampling for generating protein sequences

proteinmpnn

Code for the ProteinMPNN paper

rf_diffusion_all_atom

Public RFDiffusionAA repo

rfdiffusion

Code for running RFdiffusion

rosettafold-all-atom

seqkit_scifind_top10

Repo for storing FASTA files for Scifind post

temstapro_models

Repo housing all TemStaPro models for quick access with TRILL

trill

Sandbox for Deep-Learning based Computational Protein Design