Class: Bio::HMMER::HMMER3

Inherits:
Object
  • Object
show all
Defined in:
lib/bio/appl/hmmer/hmmer3/tabular_report.rb,
lib/bio/appl/hmmer/hmmer3/default_report.rb

Overview

Description

Parser class for hmmsearch and hmmscan in the HMMER 3 package. See README of this biogem for more information.

Defined Under Namespace

Classes: DefaultHMMSearchReport, Hit, PerDomainHit, PerSequenceHit, TabularReport

Class Method Summary collapse

Class Method Details

.reports(multiple_report_text, options = {}) ⇒ Object 



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# File 'lib/bio/appl/hmmer/hmmer3/default_report.rb', line 9

def self.reports(multiple_report_text, options={})
  if [:domtblout, :tblout].include?(options[:format])
    return TabularReport.new(multiple_report_text, options[:format])
  else
    ary = []
    multiple_report_text.each_line("\n//\n") do |report|
      if block_given?
        yield DefaultHMMSearchReport.new(report)
      else
        ary << DefaultHMMSearchReport.new(report)
      end
    end
    return ary
  end
end