01-17-2011
the "-and" is implied/default if you dont specify the "-or", so you dont really need to specify it in your find statement
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LEARN ABOUT DEBIAN
go::model::graphiterator
GO::Model::GraphIterator(3pm) User Contributed Perl Documentation GO::Model::GraphIterator(3pm)
NAME
GO::Model::GraphIterator - Graph iterator
SYNOPSIS
$it = $graph->create_iterator;
# returns a GO::Model::GraphIterator object
while (my $ni = $it->next_node_instance) {
$depth = $ni->depth;
$term = $ni->term;
$reltype = $ni->parent_rel->type;
printf
"%s %8s Term = %s (%s) // depth=%d
",
"----" x $depth,
$reltype,
$term->name,
$term->public_acc,
$depth;
}
DESCRIPTION
SEE ALSO
GO::Model::Graph
GO::Model::GraphNodeInstance
order
Usage - $graphiter->order("breadth");
Returns - string
Args - string
gets/sets traversal order; breadth or depth; default is depth
direction
Usage - $graphiter->direction("up");
Returns - string
Args - string
gets/sets direction; default is "down"
compact
Usage - $graphiter->compact(1);
Returns - bool
Args - bool
set this if you dont want relationships to be traversed twice; this gives a more compact tree representation of the graph
reltype_filter
Usage - $graphiter->reltype_filter(qw(is_a part_of))
Returns - array
Args - array
by default, all relationship types are treated as transitive, and will be traversed by the iterator
sometimes you dont want to traverse all relations, even if they are transitive. For example, when answering the query "find all genes
expressed in the embryo" you way want subtypes of embryo and parts of the embryo but not things that develop_from the embryo.
For more details, see <http://sourceforge.net/mailarchive/forum.php?thread_id=9448679&forum_id=43082>
reset_cursor
Usage -
Returns -
Args -
next_node
Usage -
Returns - GO::Model::Term
Args -
next_node_instance
Usage -
Returns - GO::Model::GraphNodeInstance
Args -
flatten
Usage -
Returns -
Args -
_sortby_pos_in_list
Careful, this sort function work on Term objects, not GraphNodeInstance objects. Comparison is done by the name of the term.
perl v5.14.2 2013-02-07 GO::Model::GraphIterator(3pm)