[maker-devel] AED score

[Carson Holt]

AED score with 1 are the ones you don't want.  0 is best and 1 is worst as
it is a distance metric.  You can use the AED_threshold parameter to
require better matching to the evidence by setting it closer to 0. You can
also try to increase protein homology evidence as some of your calls may
be split genes due to lack of evidence linking them.

--Carson


On 12-11-26 4:35 PM, "Parul Kudtarkar" <parulk at caltech.edu> wrote:

>Dear Maker community,
>
>For gene-prediction I get training data-set from evidence based
>prediction, I use this data-set to train SNAP as well as Augustus
>predictions, followed by boot-strapping. I would typically expect 20-30K
>genes however I am getting 8 times the expected gene count indicating too
>many false positives. Is there a way to further refine these
>predication/script to retain predictions with AED score 1 and if yes how
>to go about this?
>
>Thanks and regards,
>Parul Kudtarkar
>
>--
>Scientific Programmer
>Center for Computational Regulatory Genomics
>Beckman Institute,
>California Institute of Technology
>http://www.spbase.org
>
>
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