NAME
tag-loc-ids.pl - Compute seq id organelle tags based on sequence identity
VERSION
version 0.210170
USAGE
tag-loc-ids.pl <infiles> [optional arguments]REQUIRED ARGUMENTS
OPTIONAL ARGUMENTS
- --in[-strip]=<str>
-
Substring(s) to strip from infile basenames before attempting to derive other infile (e.g., IDM files) and outfile names [default: none].
- --percent-id=<n>
-
Min percentage identity to consider a hit.
- --fasta[-suffix]=<suffix>
-
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.
- --pruning
-
If activated produce a list of sequence IDs for pruning of alignment ('.idl' file). By default, output is a '.idm' file for renaming sequences in original fasta/ali file.
- --loc=<loc>
-
for Euclid: loc.type: str
Cellular compartment you want to work with.
- --count=<str>
-
Prot count per plastome file.
for Euclid: str.type: str
- --pid_only
- --version
- --usage
- --help
- --man
-
Print the usual program information
AUTHOR
Denis BAURAIN <denis.baurain@uliege.be>
CONTRIBUTOR
Mick VAN VLIERBERGHE <mvanvlierberghe@doct.uliege.be>
COPYRIGHT AND LICENSE
This software is copyright (c) 2021 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.