Question: Help with multi-factored RNA-seq edgeR model
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gravatar for cody0071
3 months ago by
cody00710
cody00710 wrote:

Hello, I am analyzing an experiment and am trying to come up with a model design to compare the differences between 2 treatments and 2 factors. I need help in trying to organize the model design matrix in EdgeR. How can I write the code for them to be recognized? I also need to make sure my replicates are similar to one another in each 'group' in order to effectively compare. I have been analyzing everything separately and then combining results, but I am wondering if there is a more efficient way to go about analyzing the data?

  Factor #1 Factor #2
Treatment #1 4 Replicates 4 Replicates
Treatment #2 4 Replicates 4 Replicates

The table is an overview of the data I have for the RNA-seq experiment. I am interested in any differences between all possibilities. Thanks in advance to any help offered!

 

 

ADD COMMENTlink modified 3 months ago by James W. MacDonald49k • written 3 months ago by cody00710
Answer: Help with multi-factored RNA-seq edgeR model
2
gravatar for James W. MacDonald
3 months ago by
United States
James W. MacDonald49k wrote:

See section 3.3 of the edgeR User's Guide.

ADD COMMENTlink written 3 months ago by James W. MacDonald49k
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