Hi Slim,

The tool is working correctly as we have it implemented right now, but there is some room for improvement. We are adding some tuning to our near-term to do list. Thanks for the suggestion!


Best,

Jen
Galaxy team

On 4/5/11 9:31 AM, Slim Sassi wrote:
Hello,
I tried to use NGS: SAM Tools ->flagstat on a BAM files for basic stats,
but I got results like you see below. It doesn't seem to be working. Any
suggestions?

26584869 in total

0 QC failure
0 duplicates
26584869 mapped (100.00%)
0 paired in sequencing
0 read1
0 read2
0 properly paired (-nan%)
0 with itself and mate mapped
0 singletons (-nan%)
0 with mate mapped to a different chr
0 with mate mapped to a different chr (mapQ>=5)

Thanks
Slim


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