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Scripts that Bio2RDF users have created to generate RDF versions of scientific datasets

branch: master
Octocat-spinner-32 affymetrix Use DownloadSingle for affymetrix June 12, 2013
Octocat-spinner-32 biomodels Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 biopax Merge remote-tracking branch 'origin/master' August 24, 2012
Octocat-spinner-32 chembl Fixed (line 392): removed premature closing parenthesis in chembl qua… September 16, 2013
Octocat-spinner-32 clinical-trials Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 common update May 04, 2013
Octocat-spinner-32 ctd Use DownloadSingle in ctd June 12, 2013
Octocat-spinner-32 dbpedia adding minor changes April 19, 2012
Octocat-spinner-32 drugbank Drugbank: escape quotes in literals June 21, 2013
Octocat-spinner-32 genbank deleted tmp file September 17, 2012
Octocat-spinner-32 gene Use DownloadSingle in gene June 12, 2013
Octocat-spinner-32 goa Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 hgnc HGNC: check if the header is correct before processing June 20, 2013
Octocat-spinner-32 homologene Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 html-summary Updated bio2rdf-html-summary.php: changed links at top of page, and u… April 24, 2013
Octocat-spinner-32 interpro Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 ipi Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 iproclass Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 irefindex Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 mesh Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 mgi Use DownloadSingle in mgi June 12, 2013
Octocat-spinner-32 ncbo removed bug March 29, 2013
Octocat-spinner-32 ndc Use DownloadSingle in NDC - also fix undefined varable use June 12, 2013
Octocat-spinner-32 omim Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 pathwaycommons Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 pharmgkb Use DownloadSingle for PharmGkb June 12, 2013
Octocat-spinner-32 pubchem update May 04, 2013
Octocat-spinner-32 pubmed Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 sabiork Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 sgd Use DownloadSingle in sgd June 12, 2013
Octocat-spinner-32 sider Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 statistics fixed merge typo May 04, 2013
Octocat-spinner-32 taxonomy Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 toxkb forgot to commit change of pubchem to pubchem_compound namespace August 08, 2012
Octocat-spinner-32 uniprot Updated pubmed and uniprot scripts March 05, 2013
Octocat-spinner-32 unists Fix the resulted files names and added time measuring code. June 06, 2013
Octocat-spinner-32 wormbase Wormbase version WS235- changes suggested in github #226 discussion m… May 28, 2013
Octocat-spinner-32 .gitignore dsstox update July 26, 2012
Octocat-spinner-32 MIT-LICENSE.txt Update MIT-LICENSE.txt January 24, 2014
Octocat-spinner-32 README.md Update README.md January 24, 2014
README.md

Bio2RDF-scripts

This Git repository holds all of the RDF converter scripts used to generate Bio2RDF linked data.

Requirements

The majority of these scripts were created so as to run on Linux servers. Depending on the script you wish to run you will need:

The Bio2RDF API should be installed in the root directory of the project tree (i.e sibling to bio2rdf-scripts).

Usage

Each script is run independently. See README files inside each script directory.

Contact Us

For more information visit http://bio2rdf.org or http://dumontierlab.com


Licensed under MIT License, see license page for details.

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