Question: (Closed) How to use Deseq2 to merge the biological triplicates (for two seperate conditions) for analysing differential expression of genes
gravatar for Novice
4 months ago by
Novice0 wrote:

I am very new to R, I have used Deseq2 package after my feature counts. I have 2 stages of control and treated with triplicates of each. I am forwarding the code that I have used

step 1 : dds <- DESeqDataSetFromMatrix(countData = Feature_counts$counts, colData = colData, design = ~ Condition+Replicates) step 2 temp_dds <- DESeq(dds) step 3

        res<-results(temp_dds, contrast=c("Condition","Control","treated"))

Can you please tell me that how can I merge the biological replicates as I have three. Am I doing it correct

Please I would really appreciate your guidance on this

ADD COMMENTlink written 4 months ago by Novice0

Hello Novice!

We believe that this post does not fit the main topic of this site.

For line command usage help with DeSeq2, please try this forum instead

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.


ADD REPLYlink written 4 months ago by Jennifer Hillman Jackson25k
Please log in to add an answer.
The thread is closed. No new answers may be added.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 171 users visited in the last hour