GO::Parsers::go_assoc_parser(3pm)			User Contributed Perl Documentation			 GO::Parsers::go_assoc_parser(3pm)

NAME

	 GO::Parsers::go_assoc_parser	  - syntax parsing of GO gene-association flat files

SYNOPSIS

DESCRIPTION

       do not use this class directly; use GO::Parser

       This generates Stag/XML event streams from GO association files.  Examples of these files can be found at http://www.geneontology.org, an
       example of lines from an association file:

	 SGD	 S0004660	 AAC1		 GO:0005743	 SGD:12031|PMID:2167309 TAS		C	ADP/ATP translocator	YMR056C gene	taxon:4932 20010118
	 SGD	 S0004660	 AAC1		 GO:0006854	 SGD:12031|PMID:2167309 IDA		P	ADP/ATP translocator	YMR056C gene	taxon:4932 20010118

       See <http://www.geneontology.org/GO.annotation.shtml#file>

       See http://www.godatabase.org/dev/xml/dtd/go_assoc-parser-events.dtd <http://www.godatabase.org/dev/xml/dtd/go_assoc-parser-events.dtd> For
       the DTD of the event stream that is generated

       The following stag-schema describes the events that are generated in parsing an assoc file:

	 (assocs
	  (dbset+
	    (proddb "s")
	    (prod+
	      (prodacc "s")
	      (prodsymbol "s")
	      (prodtype "s")
	      (prodtaxa "i")
	      (assoc+
		(assocdate "i")
		(source_db "s")
		(termacc "s")
		(is_not "i")
		(aspect "s")
		(evidence+
		  (evcode "s")
		  (ref "s"))))))

perl v5.14.2							    2010-05-31					 GO::Parsers::go_assoc_parser(3pm)