Description Usage Arguments Details Value Author(s) References Examples
This function filters the expression using DAFS (see ref). This is a core function invoked by the DAFS wrapper.
1 | dafs(VEC1, PLOT)
|
VEC1 |
Vector 1, not intended for user interaction. |
PLOT |
Boolean, toggles plotting. |
This function filters the expression, using Data Adaptive Flag method.
Returns vx[which.min(vv)] to wrapper function.
AJ Vaestermark, JR Walters.
BMC Bioinformatics, 2014, 15:92
1 2 3 4 5 6 7 8 9 10 11 12 13 | library(mclust)
library(edgeR)
data(hmel.data.doser)
reps <- c("Male", "Male", "Male", "Female", "Female", "Female")
annotxn <- data.frame("Chromosome" = factor(hmel.dat$chromosome,
levels = 1:21))
hm.tr<-hmel.dat$trxLength
hm<-new("countDat",data=hmel.dat$readcounts,seglens=hm.tr,
annotation=annotxn)
replicates(hm) <- reps
libsizes(hm) <- getLibsizes2(hm, estimationType = "total")
rpkm(hm) <- make_RPKM(hm)
f_hm <- dafsFilter(hm)
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