Class: Bio::Muscle

Inherits:

Alignment::FactoryTemplate::StdinInFileOut

• Object
• Alignment::FactoryTemplate::Simple
• Alignment::FactoryTemplate::StdinInFileOut
• Bio::Muscle

Defined in:

lib/bio/appl/muscle.rb

Overview

Bio::Muscle is a wrapper class to execute MUSCLE.

Please refer documents in bio/apple/muscle.rb for references.

Constant Summary

DEFAULT_PROGRAM =

default program name

'muscle'.freeze

DEFAULT_PARSER =

default report parser

Bio::Alignment::MultiFastaFormat

Instance Attribute Summary

Attributes inherited from Alignment::FactoryTemplate::Simple

#command, #data_stdout, #exit_status, #options, #output, #program, #report

Method Summary

Methods inherited from Alignment::FactoryTemplate::Simple

#initialize, #query, #query_align, #query_alignment, #query_by_filename, #query_string, #reset

Constructor Details

This class inherits a constructor from Bio::Alignment::FactoryTemplate::Simple