detectionPnegNormTotal {sesame} | R Documentation |
The function takes a SigSet
as input, computes detection p-value
using negative control probes parametrized in a normal distribution with
the two channels summed first and returns a new SigSet
with an
updated mask slot. The SD is summed to emulate the SD of the summed
signal (not the most accurate treatment).
detectionPnegNormTotal(sset, pval.threshold = 0.05, return.pval = FALSE)
sset |
a |
pval.threshold |
minimum p-value to mask |
return.pval |
whether to return p-values, instead of a
masked |
detection p-value
sset <- sesameDataGet("HM450.1.TCGA.PAAD")$sset sum(mask(sset)) sset_with_mask <- detectionPnegNormTotal(sset) sum(mask(sset_with_mask))