RemoveGenes - Remove a set of loci from allele calling results
Basic Usage
chewBBACA.py RemoveGenes -i /path/to/ProfilesFile -g /path/to/GenesListFile -o path/to/OutputFile
Parameters
-i, --input-file (Required) Path to a TSV file with allelic profiles determined by the AlleleCall module.
-g, --genes-list (Required) Path to a file with a list of genes to remove, one identifier per line.
-o, --output-file (Required) Path to the output file.
--inverse (Optional) If provided, the genes included in the list will be kept, and all other genes
will be removed (default: False).
Outputs
The process creates a TSV file without the columns matching the genes in the input genes list or
only with the columns matching those genes if the --inverse
parameter was provided.