sampleRanges: sampleRanges

In TFBSTools: Software Package for Transcription Factor Binding Site (TFBS) Analysis

Description

Sample ranges with same widths of input rannges from a set of subject ranges.

Usage

  sampleRanges(inputGRanges, subjectGRanges, ignore.strand=TRUE)

Arguments

inputGRanges	The input GRanges.
subjectGRanges	The subject GRanges.
ignore.strand	When set to TRUE, the strand information is ignoreed during the sampling. Otherwise, the input ranges on positvie strand will only sample from subject ranges on positvie strand.

Value

A GRanges object with the same length and widths of inputGRanges.

Author(s)

Ge Tan

Examples

  library(GenomicRanges)
  inputGRanges <- GRanges(seqnames=c("chr1", "chr2"), 
                         range=IRanges(start=c(2L, 10L), end=c(6L, 15L)),
                          strand=c("+", "-"))

  subjectGRanges <- GRanges(
                            seqnames=c("chr1", "chr1", "chr1", "chr1", 
                                       "chr2", "chr2"),
                            ranges=IRanges(start=c(20L, 20L, 30L, 30L, 7L, 25L),
                                           end=c(50L, 50L, 32L, 32L,9L, 55L)),
                            strand=c("+","-", "+", "-", "+","-"))
  set.seed(16)
  sampleRanges(inputGRanges, subjectGRanges, ignore.strand=TRUE)
  sampleRanges(inputGRanges, subjectGRanges, ignore.strand=FALSE)

TFBSTools documentation built on Nov. 8, 2020, 8:14 p.m.