getSignificantRegions: Get ths significant regions from delta data

Description Usage Arguments Value

View source: R/deltaCaptureC.R

Description

This function takes delta data as a SummarizedExperiment and required ancillary data and returns a GenomicRanges object whose mcols indicate the significant regions.

Usage

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Arguments

deltaSE

a ranged summarized experiment with a one-column assay giving the delta mean count

regionOfInterest

a GenomicRanges object specifying the region of interest

viewpointRegion

the region withheld from arbitrary permutation

smallBinSize

size to bin original data to for permutation

bigBinSize

size to bin data to for significance testing. Must be a multiple of smallBinSize

numPermutations

= 1000 the number of permutations to be used for permutation testing

pValue

the desired significance level

Value

a GRanges object giving the bigBin binning of region of interest whose mcols gives the values of delta and logicals telling whether the bin is in the viewpoint regsion and whether it rises to statistical significance


deltaCaptureC documentation built on Nov. 8, 2020, 5:31 p.m.