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ukaraoz / ea-utils

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The N-percent maximum difference #15

Closed GoogleCodeExporter closed 8 years ago

GoogleCodeExporter commented 8 years ago 
In the current version, it's default is 8, does this mean at most 8% difference 
allowed? However, in the wiki document, the default is .20

In addition, if the perfect matches wanted, should I set it as '0' in current 
version?

Original issue reported on code.google.com by pancheng...@gmail.com on 24 Apr 2013 at 6:51

GoogleCodeExporter commented 8 years ago 
The default is 8%.   Wiki is old, I will update it.   In the parameter testing 
I did, it should even be lower (<= 5%).  At some point optimizing this has 
diminishing returns.  Yes, you can set it a 0 to ensure a perfect match.   

This will, of course result in false negatives at : (error rate of the trailing 
bases * 2 * the number of bases of overlap).   But for some applications that 
doesn't matter.

Original comment by earone...@gmail.com on 24 Apr 2013 at 2:03

GoogleCodeExporter commented 8 years ago

Original comment by earone...@gmail.com on 24 Apr 2013 at 2:04