# report.rb

Path: | lib/bio/appl/hmmer/report.rb
Last Update: | Thu Nov 19 15:47:02 +0000 2009

# bio/appl/hmmer/report.rb - hmmsearch, hmmpfam parserer

Copyright: | Copyright (C) 2002 Hiroshi Suga <suga@biophys.kyoto-u.ac.jp>,
Copyright: | Copyright (C) 2005 Masashi Fujita <fujita@kuicr.kyoto-u.ac.jp>
License: | The Ruby License

$Id:$

## Description

Parser class for hmmsearch and hmmpfam in the HMMER package.

## Examples

       #for multiple reports in a single output file (example.hmmpfam)
       Bio::HMMER.reports(File.read("example.hmmpfam")) do |report|
         report.program['name']
         report.parameter['HMM file']
         report.query_info['Query sequence']
         report.hits.each do |hit|
           hit.accession
           hit.description
           hit.score
           hit.evalue
           hit.hsps.each do |hsp|
             hsp.accession
             hsp.domain
             hsp.evalue
             hsp.midline
         end
       end

## References

- HMMER hmmer.wustl.edu/

### Required files

bio/appl/hmmer pp

### External Aliases

pp | -> | p

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