Class Bio::Genscan::Report::Gene
In: lib/bio/appl/genscan/report.rb
Parent: Object

Container class of predicted gene structures.

Methods

new   set_aaseq   set_naseq   set_polyA   set_promoter  

Attributes

aaseq  [R]  Returns Bio::FastaFormat object.
exons  [R]  Returns Array of Bio::Genscan::Report::Exon.
naseq  [R]  Returns Bio::FastaFormat object.
number  [R]  Returns "Gn", gene number field.
polyA  [R]  Returns Bio::Genscan::Report::Exon object.
promoter  [R]  Returns Bio::Genscan::Report::Exon object.

Public Class methods

new(gn)

Bio::Genescan::Report::Gene.new(gene_number)

[Source]

     # File lib/bio/appl/genscan/report.rb, line 198
198:       def initialize(gn)
199:         @number = gn.to_i
200:         @aaseq = Bio::FastaFormat.new("")
201:         @naseq = Bio::FastaFormat.new("")
202:         @promoter = nil
203:         @exons    = []
204:         @polyA    = nil
205:       end

Public Instance methods

set_aaseq(seq)

Bio::Genescan::Report::Gene#seq_aaseq

[Source]

     # File lib/bio/appl/genscan/report.rb, line 227
227:       def set_aaseq(seq)
228:         @aaseq = seq
229:       end
set_naseq(seq)

Bio::Genescan::Report::Gene#seq_naseq

[Source]

     # File lib/bio/appl/genscan/report.rb, line 233
233:       def set_naseq(seq)
234:         @naseq = seq
235:       end
set_polyA(segment)

Bio::Genescan::Report::Gene#seq_polyA

[Source]

     # File lib/bio/appl/genscan/report.rb, line 245
245:       def set_polyA(segment)
246:         @polyA = segment
247:       end
set_promoter(segment)

Bio::Genescan::Report::Gene#seq_promoter

[Source]

     # File lib/bio/appl/genscan/report.rb, line 239
239:       def set_promoter(segment)
240:         @promoter = segment
241:       end

[Validate]