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How to get the relationships between all pairs of GO terms in the GO hierarchy
cherry at genome.Stanford.EDU
Mon Feb 16 21:00:43 PST 2004
One possibility is to use the goPath scripts from SGD. You'll find it
at the GO FTP site at:
The README has details about the output. You'll want to use the
parseOntology.pl file on the three ontology go/ontology/ directory.
parseOntology.pl reads the ontology file and outputs a TAB-delimited
file that explicitly states all the paths between nodes. On my home
Mac the script runs in a few seconds for each ontology file.
On Feb 16, 2004, at 5:42 PM, Sarath Chandra Janga wrote:
> Dear all
> Could someone tell which is the best way to get the relationships
> between any pair of GO terms in the GO hierarchy(whether they have a
> parent-child relationship or not) into a simple flat file
> Any help would be appreciated
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