Hi,

Below is my samples and conditions info:

Sample_ID        Conditions
1                        A
2                        A
3                        A
4                        B
5                        B
6                        B
7                        C
8                        C
9                        C

For A_vs_C, I followed:

res_A_vs_C= lfcShrink(dds, contrast=c("Conditions", "A", "C"), type='ashr')

Now, I want to compare samples with A and B conditions together versus condition C (A+B_vs_C). How can I do that from the above dds (if there is a way)?

Or do I need to group A+C and create a new column, and then run a new DESeq()? Please guide.

Thanks.

See previous threads Using the "listValues" argument of DESEQ in multiple group comparisons

listValues is the keyword.