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broadinstitute / ichorCNA

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
GNU General Public License v3.0
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why genomewide CNV is not so "normalized" as in reference #90

Open asaki1986 opened 3 years ago

asaki1986 commented 3 years ago

Hi,

I am using ichorCNA to process the 1x WGS data for miscarriage samples. Using data from normal samples as reference, we tend to estimate the CNV status of the genome. We found the genomewide CNV plot is very noisy against the reference, which is largely different from the plot presented in reference.

Any method to get the plot more smoothly?

11 12 WechatIMG9125

Thanks, Junfeng

asaki1986 commented 3 years ago

Any method to make the data normalized?