search

thpar / diffany

Diffany is an open-source toolbox for calculating and visualizing differential networks.
7 stars 2 forks source link

The cutoff of confidence #260

Open xflicsu opened 8 years ago

xflicsu commented 8 years ago

Hello, When we use Diffany, how to set the cutoff of -c parameter?

Thanks

thpar commented 8 years ago

the -c or --confidence parameter sets the minimal weight of a resulting edge for it to be included in the consensus network.

In the Diffany Cytoscape app, this corresponds with the Cutoff text field in the options panel.

xflicsu commented 8 years ago

Thanks for your response! The weight of edges of my network are range from 0 to 2. What value is reasonable cutoff used for differential network detection?

thpar commented 8 years ago

It will depend on your specific data how big a network change should be to be relevant enough to be included in your output.