ddomingof Goto Github PK

bioinformatics-conference-bingo

The perfect bingo to attend a bioinformatics conference

biomedical-entity-linking

bionev

Code and datasets for "Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations"

ccs-prediction

Evaluating the generalizability of graph neural networks for predicting collision cross section

chemical-roles

Curation of mechanistic relations from roles in ChEBI and MeSH

clustergrammer

An interactive heatmap visualization built using D3.js

cosmos

covid-19

Supplementary code for the paper: Network Medicine Framework for Identifying Drug Repurposing Opportunities for COVID-19

covid-pathways.github.io

ddomingof

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drug2ways

A Python package for drug discovery by analyzing causal paths on multiscale networks

ethnobotany

Source code and data for "Modern drug discovery using ethnobotany: A large-scale cross-cultural analysis of traditional medicine reveals common therapeutic uses"

famplex

Resources for grounding protein families and complexes from text and describing their hierarchical relationships.

geva_neif

gp-bench

indra

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

keen

A computational framework for learning and evaluating knowledge graph embeddings

kgem-ensembles-in-drug-discovery

Source code and data repository for "Ensembles of knowledge graph embedding models improve predictions for drug discovery"

locuszoom

A Javascript/d3 embeddable plugin for interactively visualizing statistical genetic data from customizable sources.

multigml

MultiGML

nodevectors

Fastest network node embeddings in the west

np-clinical-trials

Source code and data for "Natural products have increased rates of clinical trial success throughout the drug development process"

nx2d3

Display NetworkX graphs inline in Jupyter notebooks

phd-commits

Functions for scraping git commits from repositories associated with a PhD (or anything else) and plotting them.

plant-chemical-space

Source code and data for "Exploring the known chemical space of the plant kingdom: Insights into taxonomic patterns, knowledge gaps, and bioactive regions"

predictme

A web application for stratification of Alzheimer's and Parkinson's disease patients

probability_cheatsheet

A comprehensive 10-page probability cheatsheet that covers a semester's worth of introduction to probability.

ptsddb-resources

Resources of the PTSD Biomarker Database

pubmed2pdf

A Python package to download full article PDFs from OA publications

pyctd

PyCTD is a Python software package to query and analyse data from the CTD database