Question: Identifying DEG from time course data without condition
0
gravatar for ChIP
2.6 years ago by
ChIP500
Netherlands
ChIP500 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 • 774 views
ADD COMMENTlink modified 2.6 years ago by Benn7.1k • written 2.6 years ago by ChIP500
2

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

ADD REPLYlink written 2.6 years ago by genomax69k
1
gravatar for Benn
2.6 years ago by
Benn7.1k
Netherlands
Benn7.1k wrote:

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

ADD COMMENTlink written 2.6 years ago by Benn7.1k
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