Entering edit mode
2.9 years ago
Hi,
New to programing I'm trying to make a simple venn diagram where I could see the amount of proteins which are diffentially expressed in 1 conditon or 2 and so on, but I'm struggling and mixing up all the info I can find with no noticeable results
I have a data set that looks like this:
Group CPAM1 vs Fetal CPAM2 vs Fetal Healthy vs Fetal
Q02413 -3.43755 -3.08409 0
O75718 -3.06383 0 0
P46821 -3.04528 -2.36341 0
P14923 -2.84637 -2.71775 0
O95302 -2.70363 0 0
P16949 -2.65437 -2.5391 0
O43175 -2.58961 -2.02142 -2.22347
P50454 -2.55614 -2.219 0
P13647 -2.54504 -2.03819 0
Q07065 -2.4491 -1.95651 0
and I don't know:
if I'm supose to calculate myself the intersections, how to do it.
and if VennDiagram does it on his own, how to perhaps make a logical function to replace my values which are different from zero with a "1"..
Oh, right, and I'm using (or at least trying to) R Studio.
Thank you very much for your help!!
What is the criterium that a protein is differential here? So what is the cutoff based on the shown example?
The data was already "cuted off" in order to be significant (.59 log ratio; fdr 0.05).
So either the value is 0 so not present in that set either it is present (positive or negative, even if in the piece of the dataset shown, only negative values appear)