Command Line Interface
Run FAVA from the command line as follows:
favapy <path-to-data-file> <path-to-save-output>
Optional parameters:
-t
Type of input data (‘tsv’ or ‘csv’). Default value = ‘tsv’.
-n
The number of interactions in the output file (with both directions, proteinA-proteinB and proteinB-proteinA). Default value = 100000.
-c
The cut-off on the Pearson Correlation scores. The scores can range from 1 (high correlation) to -1 (high anti-correlation). This option overwrites the number>
-d
The dimensions of the intermediate/hidden layer. Default value depends on the input size.
-l
The dimensions of the latent space. Default value depends on the size of the hidden layer.
-e
The number of epochs. Default value = 50.
-b
The batch size. Default value = 32.