Discover dhimmel/pathways Open Source project

OBO-formatted ontologies → networkx (Python 3)

151

obonet

Scripts and resources to create Hetionet v1.0, a heterogeneous network for drug repurposing

127

integrate

User-friendly Scopus and Journal Metrics data

scopus

Bot to monitor for southbound permit spaces on the John Muir Trail

hackjohn

Cataloging pharmacotherapies in clinical trial from ClinicalTrials.gov

clintrials

Library of Integrated Cellular Signatures L1000

lincs

Reproducing the Bitcoin Whitepaper using the Manubot

bitcoin-whitepaper

User-friendly extensions to the Disease Ontology

disease-ontology

Web Ontology Language

plostime

Publication delays at PLOS and 3,475 other journals

hsdn

Analysis of the human symptoms–disease network

Processing SIDER 4.1: the side effect resource

SIDER4

Processing high-throughput drug indication resources.

indications

Trends in scientific publishing delays

delays

Utilities for interacting with NCBI EUtilities relating to PubMed

pubmedpy

Expose GitHub actions context based on the workflow event type

dump-actions-context

mesh

User-friendly extensions to MeSH

bindingdb

Process BindingDB

Processing the DisGeNET database of disease–gene association

disgenet

SNP abundance correlates with network degree

snplentiful

The licensing of bioRxiv preprints

biorxiv-licenses

User-friendly Gene Ontology annotations

gene-ontology

Uncovering the microbes of fraternity basements

fratjuice

Miscellaneous Content for Project Rephetio to repurpose drugs

rephetio

Markdown source for the Project Rephetio Manuscript https://doi.org/10.7554/eLife.26726

rephetio-manuscript

Human disease network based on GWAS loci

hodgkins

Data backend for http://het.io/disease-genes

het.io-dag-data

drugcentral

Converting DrugCentral data to Rephetio identifiers

Extract uniprot mappings to other vocabularies

uniprot

learn

Machine learning and feature extraction for the Rephetio project

Manuscript source for the People of the Pacific Symposium on Biocomputing

psb-manuscript

Calculating compound similarities using side effects and indications extracted from drug labels

SIDER2

TeX

gtex

GTEx Expression Analysis

entrez-gene

Processing the human Entrez Gene subset

Processing the DISEASES database

diseases

Data from Project Rephetio for the het.io website

het.io-rep-data

Elevation and Cancer Incidence

elevcan

PostScript

irreproducible-timestamps

Replication analysis of Irving & Holden 2016

Gene–Tissue relationships from the TISSUES database

tissues

mesothelioma

Data visualization of mesothelioma in Python

Compiling human protein–protein interactions

ppi

Hetnet prediction of candidate remyelinating compounds

myelinet

Extracting anatomy-specific gene expression in humans from Bgee

bgee

Generating expression signatures for disease using STARGEO

stargeo

Extracting disease-gene associations from the GWAS Catalog

gwas-catalog

Neo4j Browser Guides for Project Rephetio Predictions

het.io-rep-guides

Processing data from DOAF, the Disease Ontology Annotation Framework

1000 Genomes

doaf

A python package for mapping compounds via UniChem

unichem

COVID-19 Literature Publication Times

covid-publication-times

advent-of-code

Advent Of Code 2021

Processing human Evolutionary Rate Covariation data

erc

A set of python utilities for analyzing microarray data.

2011-ucsf-bp205a-microarray-project

User-friendly anatomical structures data from the Uberon Ontology

uberon

Testing repo for https://github.com/greenelab/manubot-rootstock/pull/101

code-96

CSS

het.io-dag-pycode

Python Code for Hetio Disease-Gene Prediction Study (PLOS Comp Bio, 2015)