Description Usage Arguments Author(s)
locates putative inversions based on distribution of wcRatios and generates an ROI file
1 2 | findROILocation(collapseFile, fileFrequencies, chrState = 0, verbose = TRUE,
baselineThreshold = 0.8, elongationPenalty = 3, minReads = 4)
|
collapseFile |
Dataframe of collapsed wcRatios |
fileFrequencies |
Bedfile of reads used to calculate wcRatios |
chrState |
Identify ROIs that deviate from chrState |
verbose |
Verbose messages if |
baselineThreshold |
Minimum threshold used to call ROIs from wcRatio file |
elongationPenalty |
Extends roiRowList |
minReads |
Minimimum reads required to call the ROI |
Ashley D. Sanders, Mark Hills
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