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Is there anywhere in SAM package that you'd perform between-sample normalization to account for different sequencing depth variation between samples? In other words, does SAM need un-normalized or normalized counts to perform the significance analysis?
Thank you
Amin
The text was updated successfully, but these errors were encountered:
aminzia
changed the title
Normalized RNAseq data analysis?
Normalization needed for RNAseq data analysis?
Dec 7, 2019
Hi,
SAMseq is normalizing counts, see samr:::samr.estimate.depth().
Unfortunately, this is not an option and there is no way to pre-compute the scaling factors.
Best.
Hi Mike,
Is there anywhere in SAM package that you'd perform between-sample normalization to account for different sequencing depth variation between samples? In other words, does SAM need un-normalized or normalized counts to perform the significance analysis?
Thank you
Amin
The text was updated successfully, but these errors were encountered: