Question: calculate foldchange after rlogTransformation
0
gravatar for yueli7
14 months ago by
yueli70
China
yueli70 wrote:

Hello,

I have human lung cancer cell data with no replicates, and following all the procedures in DESeq2.

After rlogTransformation, I got this table:

rld<-rlogTransformation(dds2),

 

  X549_repair.bam X6_repair.bam X6plus_repair.bam X14_repair.bam X14plus_repair.bam
ENSG00000223972.5 -0.705380592 -0.7948932821 -0.7949855462 -0.7503978596 -0.7932775487
ENSG00000227232.5 6.1414437565 6.2217508536 6.2959599684 6.0194334914 6.2919290386
ENSG00000278267.1 1.6994131779 1.732395436 1.9045910114 1.73851203 1.925247887

 

My question is: is that possible I can calculate the foldchang of two samples just use this table?

 

Thank you in advance!

deseq2 • 208 views
ADD COMMENTlink modified 14 months ago • written 14 months ago by yueli70
Answer: calculate foldchange after rlogTransformation
3
gravatar for Michael Love
14 months ago by
Michael Love24k
United States
Michael Love24k wrote:

Yup, the log2 fold change is just the difference between rlog() or vst() samples.

ADD COMMENTlink written 14 months ago by Michael Love24k
Answer: calculate foldchange after rlogTransformation
0
gravatar for yueli7
14 months ago by
yueli70
China
yueli70 wrote:

Thank you so much for your great help!

ADD COMMENTlink written 14 months ago by yueli70
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