Class: Bio::PhyloXML::Events
- Inherits:
-
Object
- Object
- Bio::PhyloXML::Events
- Defined in:
- lib/bio/phyloxml/elements.rb
Overview
Description
Events at the root node of a clade (e.g. one gene duplication).
Instance Attribute Summary collapse
-
#confidence ⇒ Object
Confidence object.
-
#duplications ⇒ Object
Integer.
-
#losses ⇒ Object
Integer.
-
#speciations ⇒ Object
Integer.
-
#type ⇒ Object
value comes from list: transfer, fusion, speciation_or_duplication, other, mixed, unassigned.
Instance Method Summary collapse
-
#to_xml ⇒ Object
Converts elements to xml representation.
Instance Attribute Details
#confidence ⇒ Object
Confidence object
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# File 'lib/bio/phyloxml/elements.rb', line 323 def confidence @confidence end |
#duplications ⇒ Object
Integer
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# File 'lib/bio/phyloxml/elements.rb', line 320 def duplications @duplications end |
#losses ⇒ Object
Integer
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# File 'lib/bio/phyloxml/elements.rb', line 320 def losses @losses end |
#speciations ⇒ Object
Integer
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# File 'lib/bio/phyloxml/elements.rb', line 320 def speciations @speciations end |
#type ⇒ Object
value comes from list: transfer, fusion, speciation_or_duplication, other, mixed, unassigned
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# File 'lib/bio/phyloxml/elements.rb', line 317 def type @type end |
Instance Method Details
#to_xml ⇒ Object
Converts elements to xml representation. Called by PhyloXML::Writer class.
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# File 'lib/bio/phyloxml/elements.rb', line 354 def to_xml #@todo add unit test events = LibXML::XML::Node.new('events') PhyloXML::Writer.generate_xml(events, self, [ [:simple, 'type', @type], [:simple, 'duplications', @duplications], [:simple, 'speciations', @speciations], [:simple, 'losses', @losses], [:complex, 'confidence', @confidence]]) return events end |