rbamtools (version 2.0.1)

bamReader: bamReader

Description

bamReader represents a connection to a BAM-file.

Usage

bamReader(filename)

Arguments

filename

Filename of BAM-file to be opened for reading.

Examples

bam_file<-system.file("extdata","accepted_hits.bam", package="rbamtools")
idx_file<-system.file("extdata","accepted_hits.bam.bai",package="rbamtools")
reader<-bamReader(bam_file)
align<-getNextAlign(reader)
name(align)
position(align)
loadIndex(reader,idx_file)
index.initialized(reader)
bamClose(reader)