Enhanced amplicon sequencing analysis

An Amplicon Sequencing Analysis Pipeline (ASAP) system to characterize a genetic sample comprising a user interface, a processing system, and a communication interface, the ASAP system characterized by:

• the user interface configured to receive assay configuration data that individually associates reference sequences and genetic characteristics;
• the processing system configured to process amplicon sequencing data and the reference sequences to identify ones of the reference sequences;
• the processing system configured to process the identified ones of the reference sequences and the individual associations between the reference sequences and the genetic characteristics to identify ones of the genetic characteristics in the assay configuration data;
• the processing system configured to generate genetic data indicating the identified genetic characteristics for the genetic sample and indicating interpretation metrics for amplicon sequencing read depth and quality related to the identified genetic characteristics;
• and
• the communication interface configured to transfer the genetic data.

An Amplicon Sequencing Analysis Pipeline (ASAP) computer apparatus to characterize a genetic sample, the ASAP computer apparatus comprising data processing circuitry and at least one or more non-transitory computer-readable storage medium, the computer apparatus characterized by:

• assay software configured to direct the data processing circuitry to process amplicon sequencing data for the genetic sample and assay configuration data that individually associates reference sequences and genetic characteristics to identify ones of the reference sequences;
• the assay software configured to direct the data processing circuitry to process the identified ones of the reference sequences and the individual associations between the reference sequences and the genetic characteristics to identify ones of the genetic characteristics in the assay configuration data;
• alignment software configured to direct the data processing circuitry to generate genetic data indicating the identified genetic characteristics for the genetic sample and indicating interpretation metrics for amplicon sequencing read depth and quality related to the identified genetic characteristics;
• and
• the at least one non-transitory computer-readable storage medium storing the assay software and the alignment software.