Question: How to calculate the p-value of frequency of my study and control of some variants?
0
gravatar for mullin.yu
6 months ago by
mullin.yu0
mullin.yu0 wrote:

Dear all,

I'm not good at statistics, which method will be preferred? Fisher's exact test or Chi Square test with Yates' continuity correction? Any R code can be shared?

Data file (say 1000G_EAS is the frequency from 1000 Genome project of EAS population):

variant,this_study,1000G_EAS
rs9934438,0.916,0.885
rs2228001,0.836,0667
rs10655852,0.821,0.571
rs4244285,0.429,0.313
rs3745274,0.402,0.215
rs2108622,0.394,0.214

Thanks a lot!

snp allele frequency p-value • 148 views
ADD COMMENTlink modified 6 months ago • written 6 months ago by mullin.yu0

Fisher exact test, but with allele counts, not frequencies

ADD REPLYlink written 6 months ago by WouterDeCoster43k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1495 users visited in the last hour