taxonomy database ?

Peter Rice pmr at sanger.ac.uk
Tue Nov 17 10:24:19 EST 1998


Heikki Lehvaslaiho <heikki at ebi.ac.uk> writes:
> Peter Rice wrote:
> > The common name(s) do not seem to be indexed. Can they be added?
> 
> They are indexed but since there are 10 different fields that contain
> other than the accepted scientific name, there are no specific search
> fields for all of them. You can search them using AllText field. 

So, for example, how do I search TAXONOMY for "human" ?


% getz '[taxonomy-all:human]' -e

... returns nothing ...

Looks to me like "alltext" is not indexed. Nor does it show the common names.

% getz '[taxonomy-spc:homo sapiens]' -e
ID                        : 9606
PARENT ID                 : 9605
RANK                      : species
GC ID                     : 1
MGC ID                    : 2
SCIENTIFIC NAME           : Homo sapiens
PREFERRED COMMON NAME     : human
COMMON NAME               : man
//

% getz '[taxonomy-spc:homo sapiens]' -t
RANK                      : species
GC ID                     : 1
MGC ID                    : 2
SCIENTIFIC NAME           : Homo sapiens

-- 
----------------------------------------------------------------------
Peter Rice                | Informatics Division, The Sanger Centre,
E-mail: pmr at sanger.ac.uk  | Wellcome Trust Genome Campus,
Tel: (44) 1223 494967     | Hinxton, Cambridge, CB10 1SA, England
Fax: (44) 1223 494919     | URL: http://www.sanger.ac.uk/Users/pmr/




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