ImportGenomicRanges: Import tab delimited text files representing genomic interval...

In benja0x40/Tightrope: ChIP-seq normalization according to background reads density

Description

Import tab delimited text files representing genomic interval data

Usage

ImportGenomicRanges(fpath, chr = 1, start = 2, end = 3,
  strand = NULL, seqinfo = NULL, xidx = NULL, xlbl = NULL,
  header = FALSE, ...)

Arguments

fpath	path to a text file defining genomic ranges.
chr	column for chromsome identifiers (default = 1).
start	column for start position (default = 2).
end	column for end position (default = 3).
strand	column for strand (default = NULL, e.g. none).
seqinfo	Seqinfo object for the considered organism.
xidx	list of extra column indexes to be imported. By default all available columns are imported.
xlbl	character vector defining the name of imported extra columns (default = NULL).
header	logical indicating if column names are present (default = FALSE).
...	optional parameters forwarded to the read.delim function.

Value

ImportGenomicRanges returns a GRanges object.

See Also

ImportCpGIslandExt, BuildGeneFeatures, GenomicTiling, ReadCountMatrix

benja0x40/Tightrope documentation built on May 24, 2019, 1:35 a.m.