Bio::AlignIO::nexml - NeXML format sequence alignment input/output stream driver
Do not use this module directly. Use it via the Bio::AlignIO class.
Please direct usage questions or support issues to the mailing list:
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.
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:
Mark Jensen, firstname.lastname@example.org Rutger Vos, email@example.com
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : next_aln Usage : $aln = $stream->next_aln Function: returns the next alignment in the stream. Returns : Bio::Align::AlignI object - returns 0 on end of file or on error Args :
Title : rewind Usage : $alnio->rewind Function: Resets the stream Returns : none Args : none
Title : doc Usage : $treeio->doc Function: Returns the biophylo nexml document object Returns : Bio::Phylo::Project Args : none or Bio::Phylo::Project object
Title : write_aln Usage : $stream->write_aln(@aln) Function: writes the $aln object into the stream in nexml format Returns : 1 for success and 0 for error Args : L<Bio::Align::AlignI> object