neksa

openfda-faers

FAERS Adverse Reaction Events database and OpenFDA API

reproducible-research-guidelines

Guidelines for accountable and reproducible computational research

mutagene

Python library and package for mutational analysis

elementary-functions

Online Supplementary Materials and scripts for the Physical Biology paper on proteins and their elementary functions

interactome

Structural Interactome pipeline

mutagene-demo

protein-sequence-motifs

Tools to derive prototypical sequence motifs of functional and structural protein units of sub-domain size

VaxDesign

A script that computationally designs a vaccine

bio_embeddings

Get protein embeddings from protein sequences

biovec

A new approach for representing biological sequences

conv_with_mpi

DeepExplain

A unified framework of perturbation and gradient-based attribution methods for Deep Neural Networks interpretability. DeepExplain also includes support for Shapley Values sampling. (ICLR 2018)

Descriptor_Calculator

Descriptor_Preprocessor

Enolase

Elementary functions in Enolase enzyme superfamily

freesasa

C-library for calculating Solvent Accessible Surface Areas

graph2vec

A parallel implementation of "graph2vec: Learning Distributed Representations of Graphs" (MLGWorkshop 2017).

int3dInterfaces

Pipeline to extract protein interfaces from Interactome3d structures

KAN

An implementation of Knowledge-aware attention networks (KAN) for protein-protein extraction task

methylation-project

ml101

intro to machine learning - reverse engineering phenomena

molecule_discovery

matter.farm, 7x7 beijing project w/ Sean Raspet

molmimic

Predict Host Pathogen Protein Protein Interactions using 3D Fully Convolutional Neural Networks

MutaBindv2.0

dataset for MutaBindv2.0

opentargets-py

Python client for the Open Targets REST API at targetvalidation.org

PDBspheres

poetry

Python dependency management and packaging made easy.

protein_family_classifier

SPServer

Assessment of the quality of protein folds and protein-protein interaction interfaces using statistical potentials

twobitreader

A fast python class for reading 2-bit files (used by UCSC genome browser)