cytoscape / cytoscape-manual

Markdown version of Cytoscape manual
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Add documentation for new core apps #62

Closed khanspers closed 1 year ago

khanspers commented 2 years ago
khanspers commented 2 years ago

Largest subnetwork added here: https://github.com/cytoscape/cytoscape-manual/blob/3.10/docs/Finding_and_Filtering_Nodes_and_Edges.md#the-select-menu

khanspers commented 1 year ago

Enhanced Graphics added here: https://github.com/cytoscape/cytoscape-manual/blob/3.10/docs/Styles.md#enhanced-graphics Didn't add circoschart yet, will ask Scooter for feedback first.

khanspers commented 1 year ago

CyCL updated here: https://github.com/cytoscape/cytoscape-manual/blob/master/docs/Cytoscape_and_OpenCL_GPU.md (removed trouble-shooting item about installing core app, updated text). Question: Do we need to describe when and how to install OpenCL prefuse layout app? Or is that also part of core now?

khanspers commented 1 year ago

Map Source and Target nodes added here: https://github.com/cytoscape/cytoscape-manual/blob/3.10/docs/Column_Data_Functions_and_Equations.md#map-source-and-target-nodes This assumes that default autoMap property will be TRUE and that the default column used will be shared_name. Need to confirm.

khanspers commented 1 year ago

New/updated sections by Yihang here: https://github.com/cytoscape/cytoscape-manual/blob/3.10/docs/App_Store.md https://github.com/cytoscape/cytoscape-manual/blob/3.10/docs/Enrichment_Table.md