NAME

draw_bgc_maps.pl - This script draws NRPS/PKS BGC clusters maps in PNG

VERSION

version 0.200700

NAME

draw_bgc_maps.pl - This tool draws NRPS/PKS gene clusters in PNG format. Four modes are allowed: antiSMASH, Palantir, Palantir'exploratory mode, or all.

USAGE

$0 [options] --report-file [=] <infile>

REQUIRED ARGUMENTS

--report[-file] [=] <infile>

Path to the output file of antismash, which can be either a biosynML.xml (antiSMASH 3-4) or a regions.js file (antiSMASH 5).

OPTIONAL ARGUMENTS

--mode [=] <str>

Mode from which drawings must be made: antismash (untreated antiSMASH data), palantir (extended domain coordinates + potentially new detected domains), exploratory (noisy overview of all domain protein signatures found without a consensus architecture) [default: all].

--label [=] <str>

Label to use for the mapping of domains: symbol, function, subtype [default: symbol].

--module-delineation [=] <str>

Method for delineating the modules. Modules can either be cut on condensation (C and KS) or substrate-selection domains (A and AT) [default: 'substrate-selection'].

--verbose

Print additionnal information concerning domains (functions, coordinates and sequence).

--outdir [=] <dir_path>

Output directory name and path [default: ./png/].

--prefix [=] <str>

String to use for prefixing the PNG files in output [default: none].

--version

--usage

--help

--man

print the usual program information

AUTHOR

Loic MEUNIER <lmeunier@uliege.be>

CONTRIBUTOR

Denis BAURAIN <denis.baurain@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.