Discover @dhimmel Open Source projects

Daniel Himmelstein (@dhimmel)

dhimmel

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Global Rank 43,580 (Top 2 %)
Followers 411
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Registered about 13 years ago
Most used languages

Jupyter Notebook
62.0 %

Python
16.0 %

HTML
14.0 %

TeX
2.0 %

PostScript 2.0 %

CSS
2.0 %

Web Ontology Language 2.0 %
Location 🇺🇸 United States
Country Total Rank 11,710
Country Ranking

Web Ontology Language 6

PostScript 207

Jupyter Notebook
886

HTML
975

TeX
2,587

Python
6,064

drugbank

User-friendly extensions of the DrugBank database

obonet

OBO-formatted ontologies → networkx (Python 3)

integrate

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

Jupyter Notebook

scopus

User-friendly Scopus and Journal Metrics data

Jupyter Notebook

hackjohn

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

clintrials

Cataloging pharmacotherapies in clinical trial from ClinicalTrials.gov

Jupyter Notebook

lincs

Library of Integrated Cellular Signatures L1000

Jupyter Notebook

bitcoin-whitepaper

Reproducing the Bitcoin Whitepaper using the Manubot

disease-ontology

User-friendly extensions to the Disease Ontology

Web Ontology Language

plostime

Publication delays at PLOS and 3,475 other journals

hsdn

Analysis of the human symptoms–disease network

SIDER4

Processing SIDER 4.1: the side effect resource

Jupyter Notebook

indications

Processing high-throughput drug indication resources.

delays

Trends in scientific publishing delays

Jupyter Notebook

pubmedpy

Utilities for interacting with NCBI EUtilities relating to PubMed

dump-actions-context

Expose GitHub actions context based on the workflow event type

mesh

User-friendly extensions to MeSH

Jupyter Notebook

bindingdb

Process BindingDB

disgenet

Processing the DisGeNET database of disease–gene association

Jupyter Notebook

snplentiful

SNP abundance correlates with network degree

Jupyter Notebook

biorxiv-licenses

The licensing of bioRxiv preprints

Jupyter Notebook

gene-ontology

User-friendly Gene Ontology annotations

Jupyter Notebook

fratjuice

Uncovering the microbes of fraternity basements

rephetio

Miscellaneous Content for Project Rephetio to repurpose drugs

Jupyter Notebook

rephetio-manuscript

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

hodgkins

Human disease network based on GWAS loci

Jupyter Notebook

het.io-dag-data

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

drugcentral

Converting DrugCentral data to Rephetio identifiers

Jupyter Notebook

uniprot

Extract uniprot mappings to other vocabularies

learn

Machine learning and feature extraction for the Rephetio project

Jupyter Notebook

psb-manuscript

Manuscript source for the People of the Pacific Symposium on Biocomputing

SIDER2

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

gtex

GTEx Expression Analysis

entrez-gene

Processing the human Entrez Gene subset

Jupyter Notebook

diseases

Processing the DISEASES database

Jupyter Notebook

het.io-rep-data

Data from Project Rephetio for the het.io website

Jupyter Notebook

pathways

A compilation of pathway gene sets

Jupyter Notebook

elevcan

Elevation and Cancer Incidence

irreproducible-timestamps

Replication analysis of Irving & Holden 2016

Jupyter Notebook

tissues

Gene–Tissue relationships from the TISSUES database

mesothelioma

Data visualization of mesothelioma in Python

Jupyter Notebook

ppi

Compiling human protein–protein interactions

Jupyter Notebook

myelinet

Hetnet prediction of candidate remyelinating compounds

Jupyter Notebook

bgee

Extracting anatomy-specific gene expression in humans from Bgee

Jupyter Notebook

stargeo

Generating expression signatures for disease using STARGEO

Jupyter Notebook

gwas-catalog

Extracting disease-gene associations from the GWAS Catalog

Jupyter Notebook

het.io-rep-guides

Neo4j Browser Guides for Project Rephetio Predictions

Jupyter Notebook

kg

doaf

Processing data from DOAF, the Disease Ontology Annotation Framework

Jupyter Notebook

unichem

A python package for mapping compounds via UniChem

covid-publication-times

COVID-19 Literature Publication Times

Jupyter Notebook

advent-of-code

Advent Of Code 2021

erc

Processing human Evolutionary Rate Covariation data

Jupyter Notebook

2011-ucsf-bp205a-microarray-project

A set of python utilities for analyzing microarray data.

uberon

User-friendly anatomical structures data from the Uberon Ontology

Jupyter Notebook

code-96

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

het.io-dag-pycode

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