NAME

Bio::Palantir::Explorer - front-end class for Bio::Palantir::Explorer module, wich handles the NRPS/PKS domain exploration without pre-existing consensus architecture

VERSION

version 0.191800

DESCRIPTION

This module implements classes and their methods for exploring NRPS/PKS domain architecture without any previous consensus imposed. Note that this application mode is only based on the expertise of the user. The input used by Palantir::Refiner is the FASTA file of a NRPS/PKS BGC (e.g., nrps_bgc.fasta), which can be extracted from antiSMASH HTML webpages or with the script bin/extract_fasta.pl (which uses Palantir::Parser).

The exploratory Biosynthetic Gene Cluster (BGC) information is hierarchically organized as follows:

ClusterFasta.pm: contains attributes and methods for the BGC Cluster level, including an array of GeneFasta objects

GeneFasta.pm: contains attributes and methods for the BGC Gene level, including an array of DomainPlus objects (if NRPS/PKS BGCs)

DomainPlus.pm: contains attributes and methods for the BGC Domain level

The Domain information is inherited from Palantir::Refiner::DomainPlus, and as no consensus architecture is defined, Module information is not applicable.

AUTHOR

Loic MEUNIER <lmeunier@uliege.be>

COPYRIGHT AND LICENSE

This software is copyright (c) 2019 by University of Liege / Unit of Eukaryotic Phylogenomics / Loic MEUNIER and Denis BAURAIN.

This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.