pmQuality: Calculate probe quality scores

In charm: Analysis of DNA methylation data from CHARM microarrays

Description

pmQuality calculates probe quality for each pm probe by comparing the total DNA signal (green) to the distribution of the background probe signals. 0 means lower than all background probes. 100 means higher than all background probes.

Usage

pmQuality(dat, channel="channel1", verbose=FALSE, idx=NULL) 

Arguments

dat	a TilingFeatureSet object
channel	which channel to assess
verbose	logical value for whether or not to print message to screen
idx	vector of probe indices specifying which probes to evaluate. By default all pm probes are used.

Author(s)

Martin Aryee <[e-mail]>, Peter Murakami, Rafael Irizarry

See Also

regionPlot, dmrFinder, dmrFdr

Examples

# See dmrFdr

charm documentation built on May 6, 2019, 2:29 a.m.