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package Bio::Palantir::Explorer; |
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# ABSTRACT: front-end class for Bio::Palantir::Explorer module, wich handles the NRPS/PKS domain exploration without pre-existing consensus architecture |
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$Bio::Palantir::Explorer::VERSION = '0.200700'; |
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use warnings; |
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use strict; |
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use Bio::Palantir::Explorer::ClusterFasta; |
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1; |
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__END__ |
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=pod |
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=head1 NAME |
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Bio::Palantir::Explorer - front-end class for Bio::Palantir::Explorer module, wich handles the NRPS/PKS domain exploration without pre-existing consensus architecture |
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=head1 VERSION |
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version 0.200700 |
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=head1 DESCRIPTION |
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This module implements classes and their methods for B<exploring NRPS/PKS domain |
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architecture> without any previous consensus imposed. Note that this application |
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mode is only based on the expertise of the user. The input used by |
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C<Palantir::Refiner> is the B<FASTA file> of a NRPS/PKS BGC (e.g., |
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F<nrps_bgc.fasta>), which can be extracted from B<antiSMASH HTML webpages> or |
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with the script C<bin/extract_fasta.pl> (which uses C<Palantir::Parser>). |
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The exploratory B<Biosynthetic Gene Cluster (BGC) information> is hierarchically |
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organized as follows: |
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C<ClusterFasta.pm>: contains attributes and methods for the BGC B<Cluster> |
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level, including an array of GeneFasta objects |
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C<GeneFasta.pm>: contains attributes and methods for the BGC B<Gene> level, |
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including an array of DomainPlus objects (if NRPS/PKS BGCs) |
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C<DomainPlus.pm>: contains attributes and methods for the BGC B<Domain> level |
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The B<Domain> information is inherited from C<Palantir::Refiner::DomainPlus>, |
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and as no consensus architecture is defined, B<Module> information is not |
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applicable. |
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=head1 AUTHOR |
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Loic MEUNIER <lmeunier@uliege.be> |
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=head1 COPYRIGHT AND LICENSE |
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This software is copyright (c) 2019 by University of Liege / Unit of Eukaryotic Phylogenomics / Loic MEUNIER and Denis BAURAIN. |
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This is free software; you can redistribute it and/or modify it under |
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the same terms as the Perl 5 programming language system itself. |
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=cut |