Question: Identifying DEG from time course data without condition
0
gravatar for ChIP
2.2 years ago by
ChIP490
Netherlands
ChIP490 wrote:

Hi,

I have a a time course data for 7 time points with 3 replicates each and I would like to point out the clusters of genes that are differentially expressed in at least one group Vs others.

Similar problems with control and treatment problems can be solved with DESeq2 but I don't have 2 condition model.

Kindly, let me share your knowledge.

Thank you.

rna-seq edger deseq • 674 views
ADD COMMENTlink modified 2.2 years ago by b.nota6.2k • written 2.2 years ago by ChIP490
2

Section 3.4 in DESeq2 vignette tells you how to analyze time series data.

ADD REPLYlink written 2.2 years ago by genomax62k
1
gravatar for b.nota
2.2 years ago by
b.nota6.2k
Netherlands
b.nota6.2k wrote:

If you use edgeR, you can follow the ANOVA-like test in the manual.

ADD COMMENTlink written 2.2 years ago by b.nota6.2k
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