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3d_from_dms_extended_data

bear

This repository is for the paper "A generative nonparametric Bayesian model for whole genomes"

deepsequence

A generative latent variable model for biological sequence families.

detectdesign

toolkit for finding likely cas9 off-target binding and effect on gene expression, designing sgRNAs and pairs of sgRNAs with minimal off-target effect on gene-expression

edward2

A fork of Edward2, for use with the MuE package.

evcouplings

Evolutionary couplings from protein and RNA sequence alignments

evdeimmunization

Dual optimization of de-immunization and protein function

eve

Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning"

evescape

Official repository for the paper "Learning from pre-pandemic data to forecast viral antibody escape"

evmutation

Mutation effects predicted from sequence co-variation

evzoom

Visually explore covariation in protein families

gelmmnet

Generalized linear mixed model elastic net

gera-suppdata-2021

mue

A package for making MuE observation models in Edward2.

nanobody-polyreactivity

Polyreactivity Website

nemo

Learning protein structure with a differentiable simulator

neural-fingerprint-theano

Visual Convolutional Neural Graph Fingerprints in Theano/Lasagne

persistent-vi

Variational Bayes for discrete undirected models

plmc

Inference of couplings in proteins and RNAs from sequence variation

popeve

seqdesign

Protein design and variant prediction using autoregressive generative models

variants_pharmacogenes

This repository contains the code used to analyse data and produce figures for the manuscript "Genetic variation in human drug-related genes"

variational-synthesis

Repository for the paper "Optimal design of stochastic DNA synthesis protocols based on generative sequence models" (Weinstein et al., AISTATS, 2022).

vax_design

zip_benchmark