NAME

Bio::AlignIO::psi - Read/Write PSI-BLAST profile alignment files

SYNOPSIS

This module will parse PSI-BLAST output of the format seqid XXXX

DESCRIPTION

This is a parser for psi-blast blocks.

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

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:

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

AUTHOR - Jason Stajich

Email jason@bioperl.org

APPENDIX

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

new

Title   : new
Usage   : my $obj = new Bio::AlignIO::psi();
Function: Builds a new Bio::AlignIO::psi object 
Returns : Bio::AlignIO::psi
Args    :

next_aln

Title   : next_aln
Usage   : $aln = $stream->next_aln()
Function: returns the next alignment in the stream
Returns : Bio::Align::AlignI object
Args    : NONE

See Bio::Align::AlignI

write_aln

Title   : write_aln
Usage   : $stream->write_aln(@aln)
Function: writes the NCBI psi-format object (.aln) into the stream
Returns : 1 for success and 0 for error
Args    : Bio::Align::AlignI object

Bio::Align::AlignI