question on GSEAlm
0
0
Entering edit mode
Mark W Kimpel ▴ 830
@mark-w-kimpel-2027
Last seen 6.8 years ago
I've been successfully using GSEAlm for purposes quite similar to the examples in the vignette without difficulty. Now I would like to apply this package to a list of summary statistics derived from a one-sample t-test of 6 Cohen's D measurements. My options would seem to be either modeling the CD measurements, a one factor, one level, design; or, just using the computed t.statistics. R's basic function of lm doesn't seem to like one-sample tests (understandably, see my example below) yet I can't figure out how to do GSEA using just a pre-computed list of stats. > a <- c(-1, 1, 0, 100, 3) > fac <- factor(rep("A", 5)) > lm(a ~ fac) Error in `contrasts<-`(`*tmp*`, value = "contr.treatment") : contrasts can be applied only to factors with 2 or more levels ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Home Skype: mkimpel "The real problem is not whether machines think but whether men do." -- B. F. Skinner ****************************************************************** [[alternative HTML version deleted]]
GSEAlm GSEAlm • 432 views
ADD COMMENT

Login before adding your answer.

Traffic: 338 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6