joelmeyerson's repositories
alignment-server
Simple server to translate input DNA to a peptide and search genomes for a parent protein.
autopick-bc
Image classification module for protein detection in cryo-EM data.
conformation-inspector
Python script to visualize statistics on the conformational composition of protein oligomers in cryo-EM data.
ctf-grapher
Graphical tool to visualize the contrast transfer function (CTF) of an electron microscope.
dllogger
A logging tool for deep learning.
esm
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
EVcouplings
Evolutionary couplings from protein and RNA sequence alignments
flash-attention
Fast and memory-efficient exact attention
genie
De Novo Protein Design by Equivariantly Diffusing Oriented Residue Clouds
quick-montage
Generate a montage of a cryo-EM image with its associated power spectrum and CTF estimate.
openfold
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
plmc
Inference of couplings in proteins and RNAs from sequence variation
ProteinMPNN
Code for the ProteinMPNN paper