[maker-devel] MAKER presentation at PAG

[Carson Holt]

* 
* maker_map_ids - Build shorter IDs/Names for MAKER genes and transcripts
following the NCBI suggested naming format.
* map_fasta_ids - Maps short IDs/Names generated by maker_map_ids to MAKER
fasta files.
* map_gff_ids - Maps short IDs/Names generated by maker_map_id to MAKER GFF3
files, old IDs/Names are mapped to to the Alias attribute.
* maker_functional_fasta - Maps putative functions identified from BLASTP
against UniProt/SwissProt to the MAKER produced transcript and protein fasta
files.
* maker_functional_gff - Maps putative functions identified from BLASTP
against UniProt/SwissProt to the MAKER produced GFF3 files in the Note
attribute
* ipr_update_gff - Takes InterproScan (iprscan) output and maps domain IDs
and GO terms to the Dbxref and Ontology_term attributes in the GFF3 file.
This is meta data that shows up when you click on an annotation in JBrowse
/GBrowse.
* iprscan2gff3 - Takes InerproScan (iprscan) output and generates GFF3
features representing domains. Interesting tier for GBrowse. These are
visible features tracks that can be seen in JBrowse/GBrowse.
Thanks,
Carson

From:  Kevin Dorn <dorn at umn.edu>
Date:  Sunday, February 9, 2014 at 9:23 PM
To:  <carson.holt at utah.edu>
Subject:  MAKER presentation at PAG

Hi Carson, 

I saw your MAKER presentation at PAG this year and have a quick question.
I've used MAKER to annotate the plant genome we're working on, and am mostly
done. I had to step out for a second during your talk, and when I came back,
you were talking about how you can transfer meaningful annotations (getting
rid of the 'ugly MAKER names' for genes). Is there an accessory script to do
this? 

Thanks, 
Kevin Dorn 




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