Help with multi-factored RNA-seq edgeR model
1
0
Entering edit mode
cody0071 • 0
@cody0071-18824
Last seen 2.8 years ago

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!

 

 

edger design model interaction model rnaseq • 307 views
ADD COMMENT
2
Entering edit mode
@james-w-macdonald-5106
Last seen 18 hours ago
United States

See section 3.3 of the edgeR User's Guide.

ADD COMMENT

Login before adding your answer.

Traffic: 435 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6