bedtoolsMerge: Merge overlapping interavls within an individual bed file.

Description Usage Arguments

Description

bedtoolsMerge is a wrapper for bedtools merge that merges overlapping intervals within individual bed files but NOT across bed files.

Usage

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bedtoolsMerge(bedFiles, flank = 0, scorecol = 5, operation = "none",
  strand = FALSE, threads = getOption("threads", 1L))

Arguments

bedFiles

A character vector of paths to bed files.

flank

"Maximum distance between features allowed for features to be merged. Default is 0. That is, overlapping and/or book-ended features are merged."

scorecol

Positive integer specifying the column with values for performing the specified operation.

operation

to perform on overlapping bed intervals. Can be one of: none,sum,mean,collapse,distinct,count,count_distinct. Default is none, meaning no operation is performed. See bedtools docs for more info.

threads

A positive integer specifying how many samples to process simultaneously.


dvera/gyro documentation built on May 15, 2019, 6:18 p.m.