Difference: CurrentSpeeds ( vs. 1)

Revision 12010-06-10 - jayzhang

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META TOPICPARENT name="NGSAlignerProject"
Here's an updated list of speeds of our aligner vs other aligners:

All run on skorpios from the /tmp/ directory, timed with time, using the 2622382 reads file.

Aligner Exact time (s) 1-mismatch time (s) Mismatch:Exact ratio
saligner eefcc5 max_results=1 64.461 94.434 1.465
saligner 5f7f77, max_results = 10 86.937 127.223 1.46
bowtie -m64 (-v 0/1) 27.115 29.966 1.105
bowtie (-m32 compiled) (-v 0/1) 41.526 46.473 1.119
readaligner (-k 0/1) 68.646 87.841 1.280
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