is:issue state:open could not found directional impact colume in result files for Visualising directional impact with node borders in cytoscape author:krassowski

[dongdongdong11]

I use Directional integration of multi-omics data for pathway analysis. but I could not found directional impact colume in result files for Visualising directional impact with node borders in cytoscape . Could you give me the code to produce directional impact colume in result files ?

[reimand0]

Hi dongdongdong11, thanks for highlighting this limitation. We will look into it and get back to you once we have a solution. best, Jüri

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On Mon, 19 May 2025 at 03:40, dongdongdong11 ***@***.***> wrote: *dongdongdong11* created an issue (reimandlab/ActivePathways#26) <#26> I use Directional integration of multi-omics data for pathway analysis. but I could not found directional impact colume in result files for Visualising directional impact with node borders in cytoscape . Could you give me the code to produce directional impact colume in result files ? — Reply to this email directly, view it on GitHub <#26>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AETAF7LQ55VS5LJWZC2YVQD27GDIBAVCNFSM6AAAAAB5M6M7VKVHI2DSMVQWIX3LMV43ASLTON2WKOZTGA3TEOBVGU3TAOI> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[MSlobody]

Hi dongdongdong11,

We have added a tutorial here on how to aggregate results between ActivePathways analyses with and without a directional penalty for visualization in Cytoscape.

The merge_results() function produces an "Aggregated_subgroups.txt" file, which contains the directional_impact column.

This file is then used in Cytoscape as shown here.

Thank you,
Mykhaylo