rbamtools (version 2.0.1)

getRefCount: getRefCount: Returns number of reference sequences.

Description

Returns number of reference sequences as given in BAM-header.

Usage

getRefCount(object)

Arguments

object

An object of class bamReader

Value

• Integer

References

The SAM Format Specification (v1.4-r985). The SAM Format Specification Working Group. September 7, 2011. http://www.samtools.sourceforge.net/SAM1.pdf

Examples

library(rbamtools)
bam_file <- system.file("extdata", "accepted_hits.bam", package="rbamtools")
reader<-bamReader(bam_file)
if(isOpen(reader))
	getRefCount(reader)
bamClose(reader)