Data class for fasta-formatted multiple sequence alignment data, which is simply multiple entiries of fasta formatted sequences.
delimiter for flatfile
Gets an multiple alignment. Returns a Bio::Alignment object. method should be one of :naseq, :aaseq, :seq, or nil (default). nil means to automatically determine nucleotide or amino acid.
This method returns previously parsed object if the same method is given (or guessed method is the same).
# File lib/bio/appl/mafft/report.rb, line 60 def alignment(method = nil) m = determine_seq_method(@data, method) if !@alignment or m != @seq_method then @seq_method = m @alignment = do_parse(@data, @seq_method) end @alignment end
Gets an array of the fasta formatted sequence objects. Returns an array of Bio::FastaFormat objects.
# File lib/bio/appl/mafft/report.rb, line 71 def entries @data end
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