Description Value Methods Author(s) Examples
Returns an object of class bamAlign from bamReader or bamRange.
An object of class bamAlign or NULL.
signature(object = "bamRange")
An instance of class bamRange.
signature(object = "bamReader")
An instance of class bamReader
Wolfgang Kaisers
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 | #
bam<-system.file("extdata","accepted_hits.bam",package="rbamtools")
idx<-system.file("extdata","accepted_hits.bam.bai",package="rbamtools")
#
reader<-bamReader(bam)
isOpen(reader)
#
align<-getNextAlign(reader)
if(is.null(align))
print("End of File!\n")
#
loadIndex(reader,idx)
indexInitialized(reader)
#
coords<-as.integer(c(0,0,249250621))
range<-bamRange(reader,coords)
align<-getNextAlign(range)
position(align)
#
bamClose(reader)
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