Question

Normalisation upstream rlog

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zhang.jianhai ▴ 10

@zhangjianhai-12955

Last seen 5.0 years ago

Hello,

In the RNA Seq count data, upstream rlog normalisation should there be other normalisations like RPKM, CPM, etc.? Or the rlog is directly applied on raw count data?

Regards.

deseq2 rlog • 943 views

ADD COMMENT • link updated 5.7 years ago by Michael Love 43k • written 5.7 years ago by zhang.jianhai ▴ 10

score 0 · Answer 1 · 2019-04-01

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Michael Love 43k

@mikelove

Last seen 1 day ago

United States

Raw counts or estimated counts from eg Salmon. See the transformation section of the workflow.

ADD COMMENT • link 5.7 years ago Michael Love 43k

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Can you share the link of the workflow that contains the transformation section?

Regards.

ADD REPLY • link 5.7 years ago zhang.jianhai ▴ 10

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It’s linked in the first page of the vignette.

ADD REPLY • link 5.7 years ago Michael Love 43k