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Bio::SeqIO::tinyseq::tUsereContributed PBio::SeqIO::tinyseq::tinyseqHandler(3)

NAME
       Bio::SeqIO::tinyseq::tinyseqHandler - XML event handlers	to support
       NCBI TinySeq XML	parsing

SYNOPSIS
       Do not use this module directly;	use the	SeqIO handler system:

	 $stream = Bio::SeqIO->new( -file => $filename,	-format	=> 'tinyseq' );

	 while ( my $seq = $stream->next_seq ) {
	   ....
	 }

DESCRIPTION
       This object provides event handler methods for parsing sequence files
       in the NCBI TinySeq XML format.	A TinySeq is a lightweight XML file of
       sequence	information on one or more sequences, analgous to FASTA
       format.

       See <https://www.ncbi.nlm.nih.gov/dtd/NCBI_TSeq.mod.dtd>	for the	DTD.

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 list.  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 of
       the bugs	and their resolution. Bug reports can be submitted via the
       web:

	 https://github.com/bioperl/bioperl-live/issues

SEE ALSO
       Bio::SeqIO, Bio::Seq.

AUTHOR
       Donald Jackson, <donald.jackson@bms.com>

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

   new
	 Title	       : new
	 Usage	       : $handler = Bio::SeqIO::tinyseq::tinyseqHandler->new()
	 Function      : instantiates a	tinyseqHandler for use by
			 XML::Parser::PerlSAX
	 Returns       : Bio::SeqIO::tinyseq::tinyseqHandler object
	 Args	       : NONE

   start_document
	 Title	       : start_document
	 Usage	       : NONE
	 Function      : start_document	handler	for use	by XML::Parser::PerlSAX
	 Returns       : NONE
	 Args	       : NONE

   end_document
	 Title	       : end_document
	 Usage	       : NONE
	 Function      : end_document handler for use by XML::Parser::PerlSAX
	 Returns       : NONE
	 Args	       : NONE

   start_element
	 Title	       : start_element
	 Usage	       : NONE
	 Function      : start_element handler for use by XML::Parser::PerlSAX
	 Returns       : NONE
	 Args	       : NONE

   end_element
	 Title	       : end_element
	 Usage	       : NONE
	 Function      : end_element handler for use by	XML::Parser::PerlSAX
	 Returns       : NONE
	 Args	       : NONE

   characters
	 Title	       : characters
	 Usage	       : NONE
	 Function      : characters handler for	use by XML::Parser::PerlSAX
	 Returns       : NONE
	 Args	       : NONE

   TSeq
	 Title	       : TSeq
	 Usage	       : NONE
	 Function      : event handler for END of a TSeq element
	 Returns       : loh of	parsed sequence	atts for Bio::SeqIO::tinyseq
	 Args	       : NONE

   _current_element
	 Title	       : _current_element
	 Usage	       : Internal method
	 Function      : Utility method	to return current element info
	 Returns       : XML::Parser::PerlSAX hash for current element
	 Args	       : NONE

perl v5.24.1			  2017-0Bio::SeqIO::tinyseq::tinyseqHandler(3)

NAME | SYNOPSIS | DESCRIPTION | FEEDBACK | SEE ALSO | AUTHOR | APPENDIX

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