non conversion rate in BS-sq
Sorry if this question seems dumb. I have read some papers and all of them say that non-conversion rate was calculated from the chloroplast genome. But exactly how this calculation is done? And after the non-conversion rate is calculated, how does this affect downstream analysis? For example, bismark could give me a genome wide cytosine methylation report, should the methylation percentage calculated by bismark be modified to reflect the non-conversion rate?
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