qvalue package in R: Can it be used with very small proportion of true alternatives?
Hi,
I'm trying to use 'qvalue' package in r to work out the true proportion of alternatives.
I get pi0 is >1 with small lambda. pi0.lambda seems to decrease as lambda increases.
In my simulated dataset I have only a very small proportion of true alternatives. (approx 0.001%)
Can this be the reason? Is there any way I can work out the true proportion of alternative test?
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
simulate a genome with specific event
written by Matteo Ungaro •
-
Simulation of label-free bottom-up proteomics expression dataset
written by KABILAN •
-
Illumina simulated reads - tools or SRA projects
written by aziznasr1920 •
-
Simulation of pathways in scRNA
written by sp29 •
-
Cut-off value from qvalue package R for Manhattan plot
written by b.g.tamang •
-
NO FDR <0.05 in the whole dataset
written by camillab. •
-
How to calculate TPR, true positive rate,for tissue sharing between two different tissues?
written by anamaria
-
qvalues are the same, thus yielding insignificant results
written by ulapei •
-
effect of Non coding RNA in alternative splicing changes
written by elhamdallalbashi •
-
Problem With Fdr Test : Q-Values All < 0.05 For A List Of P-Values That Are Not All Significant.
written by Francois Olivier Hébert •
