Bed and bigBed analysis after the mapping.

cschlaffner / PoGo

PoGo is a proteogenomic tool which allows mapping of peptides identified through mass spectrometry to a reference genome through provided gene annotation.

http://www.sanger.ac.uk/science/tools/pogo

GNU General Public License v3.0

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Bed and bigBed analysis after the mapping. #8

Open ypriverol opened 7 years ago

ypriverol commented 7 years ago

Here I would like to collect a set of interesting questions for data mining of the final mappings:

[ ] % of coverage of the genome by chromosomes for each Species.
[ ] % of coverage Transcripts coverage and most predominant transcript by the gene for each species.
[ ] % percentage of genes/transcript coverage by unique peptides.
[ ] % Peptides that do not map to any coordinates.

cschlaffner commented 7 years ago

[ ] number of exons covered
[ ] number of splice junctions
[ ] number of alternative splice junctions covered by peptides
[ ] % of exon coverage