CNVkit: setting arbitrary bin size for WGS data
Entering edit mode
11 days ago
ashenflower ▴ 20

Hello everyone,

I need to compare different CNV callers before the segmentation step, and I would like for all of them to produce results on bins having the same size. For example, this is possible in Control-FREEC (using the window = xxx parameter in the config file).

Is it possible to manually set a value for the bin size when using the -m wgs option in CNVkit?

I tried to look evrywhere for it but I couldn't find it in the documentation (neither in other answers).

Thanks in advance!

CNVs CNVkit bin size wgs • 138 views

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