tax-filter-ali.pl - Apply a taxonomic filter to ALI files
version 0.190690
tax-filter-ali.pl --filter=<file> --taxdir=<dir> <infiles> [optional arguments]
Path to input ALI files [repeatable argument].
Path to an IDL file specifying the taxonomic filter to be applied.
In a tax_filter, wanted taxa are to be prefixed by a '+' symbol, whereas unwanted taxa are to be prefixed by a '-' symbol. Wanted and unwanted taxa are linked by logical ORs.
An example IDL file follows:
-Viridiplantae -Opisthokonta +Ascomycota +Oomycota
Path to local mirror of the NCBI Taxonomy database.
Suffix to append to infile basenames for deriving outfile names [default: none]. When not specified, outfile names are taken from infiles but original infiles are preserved by being appended a .bak suffix.
Print the usual program information
Denis BAURAIN <denis.baurain@uliege.be>
This software is copyright (c) 2013 by University of Liege / Unit of Eukaryotic Phylogenomics / 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.
To install Bio::MUST::Core, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::MUST::Core
CPAN shell
perl -MCPAN -e shell install Bio::MUST::Core
For more information on module installation, please visit the detailed CPAN module installation guide.