Is there a way of changing the order at which the filters are applied? Or disable some of the filters? I have a single cfDNA sample that I want to process, so the signal-to-noise ratio (5th fiter) ends up filtering out all the calls. I would like for example to have the homopolymer filter (6th filter) come before the SNR filter, or have the SNR filter disabled.
Is there a way of changing the order at which the filters are applied? Or disable some of the filters? I have a single cfDNA sample that I want to process, so the signal-to-noise ratio (5th fiter) ends up filtering out all the calls. I would like for example to have the homopolymer filter (6th filter) come before the SNR filter, or have the SNR filter disabled.