filterPeaks: filterPeaks

In chromswitch: An R package to detect chromatin state switches from epigenomic data

Description

Given a set of peak calls for different marks and samples, filter peaks according to values in numeric

Usage

filterPeaks(peaks, columns, thresholds)

Arguments

peaks	List of GRanges objects storing peak calls for each sample, where element names correspond to sample IDs
columns	Character vector of column names containing stats by which to filter peaks
thresholds	Vector of numeric values giving the lower thresholds to use for each of the columns specified, in the same order as columns

Value

A list of GRanges objects storing peak calls for each sample, with peaks filtered according to the columns and thresholds specified.

Examples

filterPeaks(peaks = H3K4me3,
    columns = c("signalValue", "pValue"),
    thresholds = c(4, 10))

chromswitch documentation built on Nov. 8, 2020, 5:24 p.m.