Class Bio::FANTOM::MaXML::Sequence
In: lib/bio/db/fantom.rb
Parent: MaXML

Methods

altid   annotations   id_strings   library_id  

Constants

Data_XPath = 'maxml-sequences/sequence'   (MaXML sequence) fantom2.gsc.riken.go.jp/fantom/2.1/allseq.sep.xml.gz fantom2.gsc.riken.go.jp/fantom/2.1/repseq.sep.xml.gz

Public Instance methods

altid(t = nil)

[Source]

     # File lib/bio/db/fantom.rb, line 219
219:         def altid(t = nil)
220:           unless defined?(@altid)
221:             @altid = {}
222:             @elem.each_element('altid') do |e|
223:               @altid[e.attributes['type']] = gsub_entities(e.text)
224:             end
225:           end
226:           if t then
227:             @altid[t]
228:           else
229:             @altid
230:           end
231:         end
annotations()

[Source]

     # File lib/bio/db/fantom.rb, line 241
241:         def annotations
242:           unless defined?(@annotations)
243:             @annotations =
244:               MaXML::Annotations.new(@elem.elements['annotations'])
245:           end
246:           @annotations
247:         end
id_strings()

[Source]

     # File lib/bio/db/fantom.rb, line 233
233:         def id_strings
234:           altid.values.sort.uniq
235:         end
library_id()

[Source]

     # File lib/bio/db/fantom.rb, line 237
237:         def library_id
238:           entry_id[0,2]
239:         end

[Validate]