Just want clarity on exactly what the outputs mean. My understanding is that the chi-square statistic comes from the likelihood ratio test, and thus can be converted to raw pvalues directly. What is the relation to the Q-value output?
Also, what exactly is the permutation test doing? And is it related to what is reported in the online methods multiple testing correction section?
SaideepGona
commented
4 years ago
Hello,
Just want clarity on exactly what the outputs mean. My understanding is that the chi-square statistic comes from the likelihood ratio test, and thus can be converted to raw pvalues directly. What is the relation to the Q-value output? Also, what exactly is the permutation test doing? And is it related to what is reported in the online methods multiple testing correction section?
Thanks!