|control||GRanges object of countWindows with read counts for control...|
|countBamListInGRanges||Get read counts for a list of BAM files and given count...|
|countWindows||result object of getWindows - a data.frame with the contents...|
|createResultTable||Creates a user readable result table for the test samples of...|
|getWindows||Convert BED file into data.frame of count windows|
|panelcn.mops||Core copy number detection algorithm for targeted NGS panel...|
|plotBoxplot||Create box plot of normalized read counts|
|read.width||read width used for calculating RCs of test and control|
|resultlist||result object of runPanelcnMops - a list of instances of...|
|runPanelcnMops||Full copy number detection for targeted NGS panel data for...|
|splitROIs||Split (larger) ROIs into multiple smaller (overlapping) bins...|
|test||GRanges object of countWindows with read counts for a test...|
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