April 2026 WikiPathways update: 71 edits by 7 contributorsin and 2 new pathways the last month. More news at https://github.com/wikipathways/wikipathways-help/discussions/231 Accessible via #webservices, #rstats, #pathvisio and #cytoscape. https://www.wikipathways.org/index.php/Download_Pathways […]
a new R package, PinPath, allows mapping experimental data onto pathways, using just R: https://doi.org/doi:10.18129/B9.bioc.PinPath https://bioconductor.org/packages/devel/bioc/html/PinPath.html
#openscience #bioinformatics #bioconductor
June 2026 WikiPathways release: 10 edits by 5 contributors, with 2 new pathways. More news at https://github.com/wikipathways/wikipathways-help/discussions/233
#openscience
today we phased out the WikiPathways Classic website. This website has served the project for many years and was based on the @mediawiki software for the account administration features, extended with feature to display and edit pathways. Following upstream releases turned out costly and several […]
@Marvin upgraded our SPARQL interface. It now show a title and a description, and making it easier to navigate the example queries: https://edu.nl/qdakp
Or, with an empty edit pane: https://sparql.wikipathways.org/
(maybe do a hard reload)
#openscience #bioinformatics
hi all, as promised (and really no joke), we are today shutting down the Classic website.
Step 1: take the webservice offline (done)
okay, we think we completed making Classic read-only.
Please let us know if you find something unexpected, e.g. via our Discussion forum: https://github.com/wikipathways/wikipathways-help/discussions
Milestone!
"To date, 902 pathways have been cited a total of 3018 times" https://www.wikipathways.org/browse/citedin.html
#biology #openscience
Milestone!
"To date, 902 pathways have been cited a total of 3018 times" https://www.wikipathways.org/browse/citedin.html
#biology #openscience
Step 2: SQL dump backed up (done)
Step 3: notice on new website (about done)
Step 4: remove edit access to all users (except sysop and bureaucrat) (done)
The 2026 June Release is available for download. Still not back at our regular activity, this release has 10 edit by 5 authors, and two new pathways. Other news Press, articles, blog posts, videos ...
