Class: Bio::DDBJ::XML::ClustalW

Inherits:

Bio::DDBJ::XML

• Object
• SOAPWSDL
• Bio::DDBJ::XML
• Bio::DDBJ::XML::ClustalW

Defined in:

lib/bio/io/ddbjxml.rb

Overview

ClustalW

Multiple seaquece alignment using ClustalW.

• xml.nig.ac.jp/doc/ClustalW.txt

Examples

serv = Bio::DDBJ::XML::ClustalW.new

query = <<END
> RABSTOUT   rabbit Guinness receptor
LKMHLMGHLKMGLKMGLKGMHLMHLKHMHLMTYTYTTYRRWPLWMWLPDFGHAS
ADSCVCAHGFAVCACFAHFDVCFGAVCFHAVCFAHVCFAAAVCFAVCAC
> MUSNOSE   mouse nose drying factor
mhkmmhkgmkhmhgmhmhglhmkmhlkmgkhmgkmkytytytryrwtqtqwtwyt
fdgfdsgafdagfdgfsagdfavdfdvgavfsvfgvdfsvdgvagvfdv
> HSHEAVEN    human Guinness receptor repeat
mhkmmhkgmkhmhgmhmhg   lhmkmhlkmgkhmgkmk  ytytytryrwtqtqwtwyt
fdgfdsgafdagfdgfsag   dfavdfdvgavfsvfgv  dfsvdgvagvfdv
mhkmmhkgmkhmhgmhmhg   lhmkmhlkmgkhmgkmk  ytytytryrwtqtqwtwyt
fdgfdsgafdagfdgfsag   dfavdfdvgavfsvfgv  dfsvdgvagvfdv
END

puts serv.analyzeSimple(query)
puts serv.analyzeParam(query, '-align -matrix=blosum')

WSDL Methods

• analyzeSimple(query)

• analyzeParam(query, param)

References

• xml.nig.ac.jp/doc/ClustalW.txt

Constant Summary

SERVER_URI =

BASE_URI + "ClustalW.wsdl"

Constants inherited from Bio::DDBJ::XML

BASE_URI

Instance Attribute Summary

Attributes inherited from SOAPWSDL

#log, #wsdl

Method Summary

Methods inherited from Bio::DDBJ::XML

#initialize

Methods inherited from SOAPWSDL

#initialize, #list_methods

Constructor Details

This class inherits a constructor from Bio::DDBJ::XML

Dynamic Method Handling

This class handles dynamic methods through the method_missing method in the class Bio::SOAPWSDL