rbamtools (version 2.0.1)

createIndex: createIndex(bamReader,filename)

Description

Creates an BAM-Index-file from existing BAM-file.

Usage

createIndex(object,idx_filename)

Arguments

object

An Instance of class bamReader

idx_filename

A filename for new BAM-Index-file (usually bam_filename.bam.idx)

Value

• None

Details

The function extracts the filename of the BAM-file.

Examples

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