JoinProfiles - Join allele calling results from different runs

Basic Usage

chewBBACA.py JoinProfiles -p /path/to/ProfilesFile1 /path/to/ProfilesFile2 ... -o /path/to/OutputFile

Parameters

-p, --profiles    (Required) Paths to the files containing allelic profiles determined by
                  the AlleleCall module. It is possible to provide any number of files.
                  The results must have been determined with the same schema and share
                  all the loci or a subset of the loci if using the --common parameter.

-o, --output-file (Required) Path to the output file.

--common          (Optional) Merge the results based on the subset of loci shared between
                  all files. (default: False).

Important

It is necessary to pass the --common argument if the input files do not have the same set of loci (this option creates a new file only with the set of loci shared between all input files).

Outputs

The process creates a TSV file with the allelic profiles of all samples in the input files.