Hello,
I input an aligned read file using readAligned() method in ShortRead package:
file <- "42hr.bowtie"
aln <- readAligned(file, type = "Bowtie")
Then I do some modifications on the counts in the aln object, and want to output the modified AlignedRead object, either in SAM format, or default bowtie output format (http://bowtie-bio.sourceforge.net/ma...-bowtie-output) .
So now the question is, how can I save the AlignedRead object to the disk in either of the aforementioned formats?
Thanks!
I input an aligned read file using readAligned() method in ShortRead package:
file <- "42hr.bowtie"
aln <- readAligned(file, type = "Bowtie")
Then I do some modifications on the counts in the aln object, and want to output the modified AlignedRead object, either in SAM format, or default bowtie output format (http://bowtie-bio.sourceforge.net/ma...-bowtie-output) .
So now the question is, how can I save the AlignedRead object to the disk in either of the aforementioned formats?
Thanks!