Description Usage Arguments Details Value
View source: R/data_preparation.R
This functions filters the CpG sites in the given rnb.set for quality criteria specified in the arguments.
1 2 | filter.quality(rnb.set, beads = TRUE, min.beads, intensity = TRUE,
min.int.quant = 0.1, max.int.quant = 0.95, subs)
|
rnb.set |
An object of type |
beads |
Flag indicating if sites not having more than |
min.beads |
Integer specifying the minimum number of beads required for including the site in the analysis. |
intensity |
Flag indicating if sites are to be filtered according to their intensity information. |
min.int.quant |
Lower quantile of intensities which is to be removed. |
max.int.quant |
Upper quantile of intensities which is to be removed. |
subs |
Argument specifying the subset of samples to be used |
If intensity
is set, those probes with lower/higher intensity in one of the channels than min.int.quant
/
max.int.quant
are removed.
The indices of the sites that are to be kept.
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