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Normalization #84

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helenhuangmath opened this issue Nov 3, 2022 · 1 comment
Open

Normalization #84

helenhuangmath opened this issue Nov 3, 2022 · 1 comment

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@helenhuangmath
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Hello,

I'm wondering which normalization would you suggest to use? Should I use full "alignedsize" (this should be sum of all reads of gene and TEs if I understand correctly), or should I use sum of "tot_counts" (which I assume is TE reads)?

Thank you!
@helenhuangmath
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Continue to the question above, which normalization way does SQuIRE call step use?

Thank you!

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@helenhuangmath