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Subject: Re: [galaxy-user] about Mapping Quality
Message-ID: <84af17b7-3317-43cf-92ba-c60d17a6e...@emory.edu>
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Tophat/Bowtie does not yield mapping quality, so, as per the SAM spec, that
field is set to
Tophat/Bowtie does not yield mapping quality, so, as per the SAM spec, that
field is set to 255, indicating that quality is unavailable.
http://samtools.sourceforge.net/SAM1.pdf
Best,
J.
On Feb 7, 2012, at 5:46 PM, Li, Jilong (MU-Student) wrote:
> Hi all,
>
> I used TopHat to map RNA-Seq read
Hi all,
I used TopHat to map RNA-Seq reads to genomes. In the output (.sam) file, the
value of some mapping quality (the 5th column) is 255. What does it mean? And I
found these reads which have mapping quality 255 mapped to unique place.
Thanks!
Victor
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