Detailed assay protocol specification
Techniques are disclosed relating to assay configuration. Assay devices are often used to determine characteristics of test samples, e.g., using polymerase chain reaction (PCR) or Deoxyribonucleic Acid (DNA) melt techniques. Various disclosed techniques allow detailed specification of assay parameters. This may allow user modification of assays and/or assay development by third parties. In embodiments in which assay parameters are specified using a separate device, these techniques may reduce validation requirements resulting from modified assays. In some embodiments, assay configuration information that may be added/removed/modified may include: a sequence of operations, parameters for the sequence of operations, data processing parameters, call logic rules/dependencies, and/or reporting rules.
1. A method, comprising:
receiving, at a polymerase chain reaction assaying device, test operation configuration information useable by the assaying device to cause the assaying device to perform a sequence of test operations based on a set of test operation parameters to generate data for a sample;
receiving, at a data processing device, result processing configuration information usable by the data processing device to cause the data processing device to determine an outcome for the assay based on the data for the sample and a set of outcome identification rules specified by the result processing configuration information;
wherein the test operation configuration information and result processing configuration information were generated by a computer system that is remote from the assaying device and the data processing device by the computer system:
causing a user configuration tool for the assaying device to be displayed;
receiving, from a user via the user configuration tool, test operation input that indicates an assay to be performed;
generating, based on the test operation input, the test operation configuration information that specifies the sequence of test operations for the assay to be performed by the assaying device and specifies the set of test operation parameters for the sequence of test operations;
receiving, from the user, outcome identification input that specifies at least one rule for identification of an outcome from among a plurality of potential outcomes; and
generating, based on the outcome identification input, the result processing configuration information that specifies the set of outcome identification rules for identification of an outcome from among a plurality of potential outcomes of the assay
performing, by the assaying device, the sequence of test operations based on the set of test operation parameters to generate data for the sample; and
processing, by the data processing device, the data based on the set of outcome identification rules to generate an outcome for the assay.
2. The method of claim 1 , wherein the data is fluorescence data.
3. The method of claim 1 , wherein generating the result processing configuration information is based on one or more user-specified logical dependencies between outcome identification rules of the set of outcome identification rules.
4. The method of claim 1 , further comprising:
performing signal processing operations on the data based on analysis parameters included in the result processing configuration information to generate processed data.
5. The method of claim 1 , wherein the set of outcome identification rules includes a particular outcome identification rule related to detecting a cycle threshold or a melting temperature.
6. A system comprising:
a polymerase chain reaction (PCR) assaying device useable to perform an assay;
a data processing device; and
one or more memories storing:
test operation configuration information useable by the assaying device to cause the assaying device to perform a sequence of test operations based on a set of test operation parameters to generate data for a sample;
result processing configuration information usable by the data processing device to cause the data processing device to determine an outcome for the assay based on the data for the sample and a set of outcome identification rules specified by the result processing configuration information; and
instructions that when executed by the system cause the system to receive the test operation configuration information and result processing configuration information;
wherein the test operation configuration information and result processing configuration information were generated by:
receiving, from a user, test operation input that indicates the assay to be performed;
generating, based on the test operation input, the test operation configuration information that specifies the sequence of test operations for the assay to be performed by the assaying device and specifies the set of test operation parameters for the sequence of test operations;
receiving, from the user, outcome identification input that specifies at least one rule for identification of an outcome from among a plurality of potential outcomes; and
generating, based on the outcome identification input, the result processing configuration information that specifies the set of outcome identification rules for identification of an outcome from among a plurality of potential outcomes of the assay based on results of the sequence of test operations.
7. The system of claim 6 , wherein the data is fluorescence data.
8. The system of claim 6 , wherein the test operation configuration information and result processing configuration information were generated by:
presenting a user configuration tool for the assaying device; and
wherein the test operation configuration information and outcome identification input a received via the user configuration tool.
9. The system of claim 6 , wherein the test operation configuration information and the result processing configuration information were generated by a remote computing device.
10. The system of claim 6 , wherein the set of outcome identification rules includes a particular outcome identification rule related to detecting a cycle threshold or a melting temperature.