On 03/02/2010 10:57 AM, Steve Lianoglou wrote: > Hi, > > I'm referencing the info that's mentioned in section 2.2.4 of the SAM > specification: > http://samtools.sourceforge.net/SAM1.pdf > > Is it possible to get the information stored in there from my BAM file > using Rsamtools? I can't find any way to do so, sorry if I'm missing > something obvious. > > Bowtie (and I reckon BWA, or whatever) stores the mismatch info of the > read-to-reference (eg. MD:Z:5C5C25) from there, and I'd like to be > able to get at it
There is not, but it seems like a reasonable request; it won't happen overnight. Martin > > Thanks, > -steve > -- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793 _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
