NAME¶
Bio::Variation::IO::xml - XML 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 XML file
databases.
The XML format, although consistent, is still evolving. The current DTD for it
is at <
http://www.ebi.ac.uk/mutations/DTDE/seqDiff.dtd>.
REQUIREMENTS¶
To use this code you need the module XML::Twig which creates an interface to
XML::Parser to read XML and modules XML::Writer and IO::String to write XML
out.
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
Support¶
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and reponsive
experts will be able look at the problem and quickly address it. Please
include a thorough description of the problem with code and data examples if
at all possible.
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:
https://github.com/bioperl/bioperl-live/issues
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(@haplos)
Function: writes the $seqDiff objects into the stream
Returns : 1 for success and 0 for error
Args : Bio::Variation::SeqDiff object