- SEE ALSO
Base class for BioX::Wrapper
--- indir: "/path/to/files" outdir: "path/to/testdir"
For a bash script a comment is "#", but is other characters for other languages
Print out the command line options
A path to your vcf files can be given, and using File::Find::Rule it will recursively search for vcf or vcf.gz
Path to write out annotation files. It creates the structure
outdir --annovar_interim --annovar_final --vcf-annotate_interim #If you choose to reannotate VCF file --vcf-annotate_final #If you choose to reannotate VCF file
A lot of interim files are created by annovar, and the only one that really matters unless you debugging a new database is the multianno file found in annovar_final
If not given the outdirectory is assumed to be the current working directory.
BioX::Wrapper - Base class for BioX::Wrappers
This module was originally developed at and for Weill Cornell Medical College in Qatar within ITS Advanced Computing Team. With approval from WCMC-Q, this information was generalized and put on github, for which the authors would like to express their gratitude.
Jillian Rowe <email@example.com>
Copyright 2015 - Weill Cornell Medical College in Qatar
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself.