Description

DDBJ XML BLAST Database Search

• xml.nig.ac.jp/doc/Blast.txt

Examples

  serv = Bio::DDBJ::XML::Blast.new
  program = 'blastp'
  database = 'SWISS'
  query = "MSSRIARALALVVTLLHLTRLALSTCPAACHCPLEAPKCAPGVGLVRDGCGCCKVCAKQL"

  report = serv.searchSimple(program, database, query)
  Bio::Blast::Default::Report.new(report).each_hit do |hit|
    hit.hsps.find_all {|x| x.evalue < 0.1 }.each do |hsp|
      p [hsps.evalue, hsps.identity, hsps.definition]
    end
  end

  program = 'tblastn'
  database = 'ddbjvrl'
  param = '-m 8 -e 0.001'
  puts serv.searchParam(program, database, query, param)

WSDL Methods

• searchSimple(program, database, query)

Returns a blast report in the default format.

• searchParam(program, database, query, param)

Blasts with param and returns a blast report.

References

• xml.nig.ac.jp/doc/Blast.txt