bio::clusterio::unigene(3pm) [debian man page]
Bio::ClusterIO::unigene(3pm) User Contributed Perl Documentation Bio::ClusterIO::unigene(3pm) NAME
Bio::ClusterIO::unigene - UniGene input stream SYNOPSIS
Do not use this module directly. Use it via the Bio::ClusterIO class. DESCRIPTION
This object reads from Unigene *.data files downloaded from ftp://ftp.ncbi.nih.gov/repository/UniGene/. It does not download and decompress the file, you have to do that yourself. 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 one of 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://redmine.open-bio.org/projects/bioperl/ AUTHORS - Andrew Macgregor Email: andrew at cbbc.murdoch.edu.au APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ next_cluster Title : next_cluster Usage : $unigene = $stream->next_cluster() Function: returns the next unigene in the stream Returns : Bio::Cluster::UniGene object Args : NONE perl v5.14.2 2012-03-02 Bio::ClusterIO::unigene(3pm)
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Bio::ClusterIO::dbsnp(3pm) User Contributed Perl Documentation Bio::ClusterIO::dbsnp(3pm) NAME
Bio::ClusterIO::dbsnp - dbSNP input stream SYNOPSIS
Do not use this module directly. Use it via the Bio::ClusterIO class. DESCRIPTION
Parse dbSNP XML files, one refSNP entry at a time. Note this handles dbSNPp output generated by NBCI's eutils and does NOT parse output derived from SNP's XML format (found at ftp://ftp.ncbi.nih.gov/snp/). 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 one of 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://redmine.open-bio.org/projects/bioperl/ AUTHOR
Allen Day <allenday@ucla.edu> APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ next_cluster Title : next_cluster Usage : $dbsnp = $stream->next_cluster() Function: returns the next refSNP in the stream Returns : Bio::Variation::SNP object representing composite refSNP and its component subSNP(s). Args : NONE SAX methods start_document Title : start_document Usage : $parser->start_document; Function: SAX method to indicate starting to parse a new document. Creates a Bio::Variation::SNP Returns : none Args : none end_document Title : end_document Usage : $parser->end_document; Function: SAX method to indicate finishing parsing a new document Returns : none Args : none start_element Title : start_element Usage : $parser->start_element($data) Function: SAX method to indicate starting a new element Returns : none Args : hash ref for data end_element Title : end_element Usage : $parser->end_element($data) Function: Signals finishing an element Returns : none Args : hash ref for data characters Title : characters Usage : $parser->characters($data) Function: Signals new characters to be processed Returns : characters read Args : hash ref with the key 'Data' use_tempfile Title : use_tempfile Usage : $obj->use_tempfile($newval) Function: Get/Set boolean flag on whether or not use a tempfile Example : Returns : value of use_tempfile Args : newvalue (optional) perl v5.14.2 2012-03-02 Bio::ClusterIO::dbsnp(3pm)