Is it Possible to Calculate Relative Outdegree for Connected Components

[lu...@tablelead.com]

Hi all,

I am looking for a way to calculate the outdegree for each node relative to the min and max outdegree in that connected component.

I obtain a column with ccCluster using clusterMaker2, and also obtain Outdegree analyzing the network.

I can export and calculate outside, a relative Outdegree for each node in connection to the CC it belongs to.

Wondering if getting the metric is possible within Cytoscape. Can it be done as a function? I tried a few things but all I get are results for the node, not the CC.

Any help will be appreciated.

Thanks,

Lucas

[Alex Pico]

Hi Lucas,

I'd export the table and do the calculation in Excel and then re-import the value you want as a new column.  If you are using R or Python, you could also easily do this in those environments with a short script leveraging either:

RCy3 https://www.bioconductor.org/packages/release/bioc/html/RCy3.html

or

py2cytoscape https://py2cytoscape.readthedocs.io/en/latest/

 - Alex