Bio::Variation::IO::flat.3pm

Langue: en

Autres versions - même langue

Version: 2008-01-11 (mandriva - 01/05/08)

Section: 3 (Bibliothèques de fonctions)

Sommaire

NAME

Bio::Variation::IO::flat - flat file sequence variation input/output stream

SYNOPSIS

Do not use this module directly. Use it via the Bio::Variation::IO class.

DESCRIPTION

This object can transform Bio::Variation::SeqDiff objects to and from flat file databases. The format used is EMBL like extension of what is used by the ``EBI Mutation Checker'' at http://www.ebi.ac.uk/cgi-bin/mutations/check.cgi and will eventually replace it.

More information of the attributes and values use can be found at http://www.ebi.ac.uk/mutations/recommendations/.

FEEDBACK


Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing lists Your participation is much appreciated.

   bioperl-l@bioperl.org                  - General discussion
   http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

Reporting Bugs

report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web:

   http://bugzilla.open-bio.org/

AUTHOR - Heikki Lehvaslaiho

Email: heikki-at-bioperl-dot-org

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

next

  Title   : next
  Usage   : $haplo = $stream->next()
  Function: returns the next seqDiff in the stream
  Returns : Bio::Variation::SeqDiff object
  Args    : NONE

write

  Title   : write
  Usage   : $stream->write(@seqDiffs)
  Function: writes the $seqDiff object into the stream
  Returns : 1 for success and 0 for error
  Args    : Bio::Variation::SeqDiff object