[maker-devel] annotation comparison aed plots

[Robert King (RRes-Roth)]

Dear Maker Developers,

I've updated a reference that was had errors and was a little incomplete and now trying to produce a annotation for it. Please note the reference has not changed dramatically. I've produced two annotations using as evidence:

Annotation 1:
Uniprot proteins search using species keyword "fusarium"
Pubmed mRNA for the name of the organism
Prior annotation reference transcripts

Annotation 2:
Uniprot proteins search using species keyword "fusarium"
Pubmed mRNA for the name of the organism
Prior annotation reference transcripts
mRNA trinity assembly pasafly of different strain (only RNA-seq available)

I'm not sure if it was a smart move to use the prior annotation reference transcripts?

I want to compare these two annotations and have produced AED scores. How do I generate summary stats/figures to compare annotations. You mentioned last year in a post Mike Campbell has a script to produce these, do you know if he will post it? I've got the Eval program and converted to gtf format using the provided script, just waiting on some perl modules to be installed by admin to test it. I'm waiting on some perl modules to be installed by our administrator to test out the "Evaluator" and "compare" programs too, what do they do?

Best Wishes
Rob

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