class Bio::Genscan::Report::Gene

Container class of predicted gene structures.¶ ↑

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)

Source

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

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

Public Instance Methods

set_aaseq (seq)

Source

    # File lib/bio/appl/genscan/report.rb
226 def set_aaseq(seq)
227   @aaseq = seq
228 end

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

set_naseq (seq)

Source

    # File lib/bio/appl/genscan/report.rb
232 def set_naseq(seq)
233   @naseq = seq
234 end

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

set_polyA (segment)

Source

    # File lib/bio/appl/genscan/report.rb
244 def set_polyA(segment)
245   @polyA = segment
246 end

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

set_promoter (segment)

Source

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

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