Question: Retrieving Normalized Groups from Results()
0
gravatar for dennism9251
3 months ago by
dennism92510 wrote:

Trying make a function that performs a sanity check on the results table by plotting the lfc's of genes with the lowest p-adj. Normally I would just separate the columns (my samples) in my count data (DESeq data set) into groups and then perform the necessary arithmetic

log2 (normalizedcountsgroup1 / normalizedcountsgroup2)

However things have gotten more complicated since the function wouldn't know the two groups. Is there a function that I'm not aware of that provides the group "1" or "2" or better yet the normalized counts of each group

deseq2 • 74 views
ADD COMMENTlink modified 3 months ago by Michael Love25k • written 3 months ago by dennism92510
Answer: Retrieving Normalized Groups from Results()
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gravatar for Michael Love
3 months ago by
Michael Love25k
United States
Michael Love25k wrote:

We don’t have a function like this as part of DESeq2, although if you try Google you may find some code that was posted here years ago. The support site search is not as good as Google.

ADD COMMENTlink written 3 months ago by Michael Love25k
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