NAME

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

VERSION

version 0.191620

NAME

draw_bgc_maps.pl - This tool draws NRPS/PKS gene clusters in PNG format. 3 modes are allowed: antiSMASH, Palantir and Exploratory.

VERSION

This documentation refers to version 0.0.1

USAGE

        $0 [options] --report-file [=] <file.xml> --mode <antismash|palantir|exploratory>

REQUIRED ARGUMENTS

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

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

OPTIONS

--mode [=] <str>

Mode from which drawing must be made: antismash (raw antismash data), palantir (extended domain coordinates + potentially new domain detected), exploratory (give a noisy overview of all domain protein signature found without consensus architecture). [default: palantir]

--label [=] <str>

What information use to label domains: symbol, function, subtype. [default: symbol]

--verbose

Print information concerning domains functions, coordinates et sequences.

--outdir [=] <dir_path>

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

--prefix [=] <str>

String to put before usual cluster name for png files, allow for instance to create png files for different biosynml reports. [default: ''].

--more
--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.