[ensembl-dev] empty compara database in ensemblgenomes

PATERSON Trevor trevor.paterson at roslin.ed.ac.uk
Thu Feb 21 11:38:18 GMT 2013


Hi again

I am struggling to find any compara data for bacterial species in ensemblgenomes.

Dan pointed out that bacterial homology is not now curated, apart from >100 species in pan compara.

however this database is empty
(select TABLE_NAME, TABLE_ROWS from TABLES where INFORMATION_SCHEMA.TABLE_SCHEMA='ensembl_compara_pan_homology_17_70';)

Also, alas, I don't really understand the provision of family-based compara data he alluded to  - where is this information stored?

trevor

Trevor Paterson PhD
trevor.paterson at roslin.ed.ac.uk<mailto:trevor.paterson at roslin.ed.ac.uk>
Bioinformatics
The Roslin Institute
Royal (Dick) School of Veterinary Studies
University of Edinburgh
Easter Bush
Midlothian
EH25 9RG
Scotland UK

phone +44 (0)131 651 9157

http://bioinformatics.roslin.ed.ac.uk/

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