Open GoogleCodeExporter opened 9 years ago
when you specify --outSAMattributes All option, STAR outputs extra attributes
that follow some novel SAM specifications. These attributes are only supported
by the latest versions of samtools, 0.1.18 and 0.1.19, and will also cause
problems with some downstream analysis software such as bedTools, HTseq and
Cufflinks, because, I believe, these software do not use the latest samtools
API.
I do not recommend using this option unless you really need these attributes.
You can also cut the columns with these attributes before feeding the
alignments to other software.
I will add the @RG tags in the next STAR release.
For a quicker reply, please post your questions at
https://groups.google.com/forum/#!forum/rna-star
Original comment by adobin@gmail.com
on 17 Apr 2013 at 9:22
Original issue reported on code.google.com by
ashutosh...@gmail.com
on 15 Apr 2013 at 5:42