Python port of rWikiPathways

[kozo.n...@gmail.com]

Hi wikipathways-devel,

I ported rWikiPathways to Python and published the package on PyPI.

https://pypi.org/project/pywikipathways/

https://github.com/kozo2/pywikipathways

Some functions don't have docstring yet, and some functions for downloading gpml and reading / writing gmt have not been implemented, but most of the rWikiPathways functions have been ported to Python.

If you have any comments, please let me know.

By the way, this project is inspired by py4cytoscape for RCy3.

Regards,

Kozo Nishida

[Egon Willighagen]

Thanks, Kozo!

I tweeted it: https://twitter.com/WikiPathways/status/1431505786853896193

Grtz,

Egon

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E.L. Willighagen
Department of Bioinformatics - BiGCaT
Maastricht University (http://www.bigcat.unimaas.nl/)

Twitter/Mastodon: @egonwillighagen / @egonw
Homepage: http://egonw.github.com/
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[kozo.n...@gmail.com]

Thanks, Egon

Now I finished porting all (except for https://bioconductor.org/packages/release/bioc/vignettes/rWikiPathways/inst/doc/Pathway-Analysis.html)

rWikiPathways vignettes (https://bioconductor.org/packages/release/bioc/html/rWikiPathways.html)

to pywikipathways.

https://pywikipathways.readthedocs.io

All docs (==Jupyter Notebook[s]) are reproducible with Google Colab.

Now pywikipahtways has the examples, but it has not  had most docstring yet.

I welcome your contributions.

Kozo