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Description:
After uploading a gene counts matrix and corresponding metadata file, I performed DE analysis, then created a list of up and down scored genes. For each list I performed STRING and Wikip…
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can't download pathway archive,why? `pwpw.__version__=0.0.2`
```
└─(14:53:39)──> proxychains python -c 'import pywikipathways as pwpw;pwpw.download_pathway_archive(organism="Homo sapiens", format="g…
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From 9/6/23 AHM: we have almost everything in Hetionet, except for WikiPathways and SIDER. Since Hetionet is no longer being maintained, we should consider bringing these sources in.
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the zip has WP2625_r125287 but WP2625_r128704 is on GitHub (matches classic): https://github.com/wikipathways/wikipathways-database/blob/main/pathways/WP2625/WP2625.gpml#L2C116-L2C130
egonw updated
2 weeks ago
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Clicking on a pathway from the [Filters](https://www.wikipathways.org/browse/filters.html) or [Table](https://www.wikipathways.org/browse/table.html) pages opens the pathway in the same tab. Using the…
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@ericprud, can you plz check this section: https://github.com/biohackathon-swat4hcls/2024-hack4-hack8/blame/main/paper/paper.md#L91-L113
Also, you are not listed as author on this write up yet. cc …
egonw updated
3 months ago
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A very old version of BridgeDb is currently used. Once I get things compiling, I can make the PR.
egonw updated
2 weeks ago
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I suggest to remove the BridgeDb and Derby binaries from the repository. But I cannot test it because I cannot get the code to compile with `mvn clean install`.
egonw updated
2 weeks ago
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Currently, the pom.xml indicates this app runs with Java 8 (https://github.com/wikipathways/cytoscape-wikipathways-app/blob/main/pom.xml#L98) ; this should be update to 11 (when PV4 is in place @mkutm…