diff --git a/scripts/af_or_calcs_scratch.R b/scripts/af_or_calcs_scratch.R index a4b02e2..aadc635 100644 --- a/scripts/af_or_calcs_scratch.R +++ b/scripts/af_or_calcs_scratch.R @@ -554,5 +554,12 @@ for (i in snps){ # https://stats.stackexchange.com/questions/259635/what-is-the-difference-using-a-fishers-exact-test-vs-a-logistic-regression-for - exact2x2(table(dst, mut),tsmethod="central") + #mymethod = "minlike" # default + mymethod = "central" + #mymethod = "blaker" + + exact2x2(table(dst, mut),tsmethod=mymethod) + + mcnemar.exact(x,y=NULL, conf.level=.95) + #=====================================================================