thank you! i will have to put that in my repertoire.
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Best statistical test for 1 vs 2 replicates
Hello all,
I have to do a comparison of two groups. The first group has 1 sample and the second group has 2 samples. What is the most appropriate statistical test/software for this comparison? The resources that are most readily available to me are:
- DeSeq2
- Baggerly's test (test on proportions
- Edge (Edge R basically)
- I have a Gaussian model but I have never tried it out before.
I know 1 vs 2 is not ideal, but it's the challenge I've been given. I reason that DeSeq2 needs ideally 3 replicates per group and 2 replicates per group is pushing it. Not sure which of the rest is most appropriate.
Help would be very much appreciated. Thanks!
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There is no good solution for such a low number of/no replicates. Which method is appropriate depends on the source of your data. I am guessing RNA-seq according to the tag. You can try both edgeR and Deseq but you risk having no significant genes.
thanks! yes, it is RNA-seq.