readBroadPeak

an absolute or relative path to a bed file formatted by the Encode broadPeak standard.
The file can end in <code>.gz</code>, <code>.bz2</code>, <code>.xz</code>, or <code>.zip</code>
and/or start with <code>http://</code> or <code>ftp://</code>. If the file is not compressed
it can also start with <code>https://</code> or <code>ftps://</code>.

file

the number of track lines to skip, "auto" to detect them automatically
or FALSE(default) if the bed file doesn't have track lines

track.line

A function to read the Encode formatted broad peak file into a GRanges object

A package for summary and annotation of genomic intervals. Users can visualize and 
	quantify genomic intervals over pre-defined functional regions, such as promoters, exons, 
	introns, etc. The genomic intervals represent regions with a defined chromosome position,
	which may be associated with a score, such as aligned reads from HT-seq experiments, TF binding sites, 
	methylation scores, etc. The package can use any tabular genomic feature data as long as it has minimal 
	information on the locations of genomic intervals. In addition, It can use BAM or BigWig files as input.

readBroadPeak: A function to read the Encode formatted broad peak file into a GRanges object

Description

Usage

Arguments

Value

Examples