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Question: (Closed) p-value using moderated t test
1
10 weeks ago by
gv40
United States
gv40 wrote:

Hi,

I have an input file which looks like this:

Junctions    s1_1    s1_2    s2_1    s2_2
junc1    0.23    0.25    0.76    0.78
junc2    0.27    0.31    0.51    0.50
junc3    0.9    0.78    0.16    0.12

Column1 are the junction coordinates. Column 2 and 3 represent percent splice in(psi) values for sample1(replicates). Column 4 and 5 represent percent splice in(psi) values for sample 2(replicates)

Each row defines one event. I want to calculate a p-value(significance) for each event. That is, is the event significant, meaning event for sample2 is up or down regulated w.r.t sample 1.

Can I use moderated t-test from limma package for this? Any other recomendation to calculate a p value?

Thanks for the help!!

modified 10 weeks ago • written 10 weeks ago by gv40

Hello gv!

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

This is a general stats question. You might try Biostars.org or stackoverflow.com, which are more appropriate venues.

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.

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