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Mercator output file

Mercator output file
Answer
9/10/14 1:19 PM
Hi there,

I'm trying to annotate Arabidopsis peptides from a MS experiment to MapMan bins. I uploaded the peptide sequences as a FASTA file and started Mercator. The mercator.result file contained what seemed to be all the MapMan bins. However, I couldn't find any hint on which bin was assigned to which ones of my peptides, or if there was any assignment at all.
What did I do wrong?

Greetings,

Marty

RE: Mercator output file
Answer
9/10/14 1:28 PM as a reply to Martin Thomas.
Dear Marty

Mercator needs almost full length transcripts for an annotation. But since you use Arabidsopis the simplest is to jsut download the Arabidopsis annotation and match (blast) your peptides against the Arabisopdis full length proteins. This is much preferred also since Mercator is not only simply a blast and the Arabidopsis fiule is curated.

Best Wishes
Björn