Description Usage Arguments Examples
pqHists
Make histograms of p-value and q-value distributions
1 2 |
x |
matrix containing p-values and q-values |
what.p |
the name of the column containing p-values |
what.q |
the name of the column containing q-values |
main |
The stem of the title, to which significance counts are attached |
... |
additional arguments passed on to hist, like the color of the bars |
1 2 3 4 5 6 7 8 9 10 11 12 | ## Not run:
data(kidney) # from simseq package
counts<-kidney$counts
counts<-counts[sample(1:nrow(counts),1000),]
info<-data.frame(rep=kidney$replic, treatment=kidney$treatment)
stats<-pipeLIMMA(counts=counts, info=info, formula = " ~ treatment", block=NULL)
stats.fullmodel<-stats$stats
pqHists(stats.fullmodel, what.p="ebayesPvalue_treatmentTumor",
what.q="ebayesQvalue_treatmentTumor",
main="main effect treatment", breaks=100)
## End(Not run)
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