genomic_ranges_reduce: Reduce genomic ranges to set of non-overlapping ranges

In e-myers/rnaseq: Process, Analyze and Visualize RNA-seq Data

Description

Given a bedfile containing genomic ranges, collapse overlapping ranges using the GenomicRanges package.

Usage

genomic_ranges_reduce(inFile, outFile = NULL)

Arguments

inFile	String - Name of bedfile containing genomic ranges
outFile	String - Name to give output bedfile with non-overlapping genomic ranges

Details

TIME: 10-20s, mostly to read the input file.

Value

reducedRanges

Author(s)

Emma Myers

Examples

bed1 = "/Users/nelsonlab/Documents/Results_temporarily_here/NucSeq_results/what_was_this/mm10_refSeq_exons_filtered_sorted.bed"
ranges = genomic_ranges_reduce(bed1, outFile="~/Documents/mm10_refSeq_exons_filtered_sorted_reduced.txt")

e-myers/rnaseq documentation built on May 20, 2019, 9:14 p.m.