Question: calculate foldchange after rlogTransformation
0
gravatar for yueli7
12 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 • 176 views
ADD COMMENTlink modified 12 months ago • written 12 months ago by yueli70
Answer: calculate foldchange after rlogTransformation
3
gravatar for Michael Love
12 months ago by
Michael Love23k
United States
Michael Love23k wrote:

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

ADD COMMENTlink written 12 months ago by Michael Love23k
Answer: calculate foldchange after rlogTransformation
0
gravatar for yueli7
12 months ago by
yueli70
China
yueli70 wrote:

Thank you so much for your great help!

ADD COMMENTlink written 12 months ago by yueli70
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 134 users visited in the last hour