About BaseCaller module parameters
BaseCaller module parameters are provided to reanalyze a completed run. The default BaseCaller module parameters are tuned for Ion Torrent™ sequencing data. In most cases, you do not need to modify these settings.
Modifying these parameters is recommended for advanced users only. If you need to use a custom barcode set, contact your Field Service Engineer for assistance. Correct parameter settings require knowledge of the barcodes distances in signal space. The BaseCaller module parameter defaults are optimized for the Ion Xpress™ barcode set, and likely are not correct for a custom barcode set.
When you reanalyze a run, other parameters are also listed in the BaseCaller arguments field. These parameters are for internal use; do not change or remove these fields.
Note: Barcode classification is the process by which reads are assigned to one of the barcodes present in one analysis run. Correct barcode classification is important because a classification error results in a read being assigned to the wrong barcode, which in turn leads to the read being analyzed as belonging to a wrong sample.
Barcode classification determines which barcode group a read is assigned to. Barcode classification is done for each read immediately after base calling.
Barcode filtering determines if a specific barcode is included in the run report or is filtered out. Barcode filtering works on the barcode groups as a whole.