Instrument for processing cartridge for performing assays in a closed sample preparation and reaction system

1. An apparatus for processing and analyzing a sample comprising:

a system that comprises a sample processing bay and an assay analysis module (AAM), the system including a processor coupled to a non-transitory computer readable medium, the non-transitory computer readable medium storing instructions directing the processor to:

receive and read an Assay Definition File (ADF) from an external source comprising control parameters for processing a fluid sample, sensing parameters that are a function of a particular molecular detection taking place in the apparatus, and analysis parameters for analyzing the data, wherein the analysis parameters comprise the selection of one or more digital filters to be applied from a group of two or more digital filters to process the data;

send control instructions based on the control parameters and the sensing parameters to the sample processing bay;

send analysis instructions based on the analysis parameters to the AAM;

receive the sample;

utilize the ADF to process the sample;

sense an analyte or molecule; and

report results from sensing.

2. The apparatus of claim 1 , wherein the analysis parameters define the selection of two or more digital filters from the group of two or more digital filters to process the data.

3. The apparatus of claim 1 , further comprising a component that can transmit/receive information to or from a Laboratory Information System (LIS).

4. The apparatus of claim 1 , wherein the apparatus is configured to generate a result based on the analysis parameters and generate a detection report.

5. The apparatus of claim 1 , wherein the apparatus is configured to receive a pending test order directly from a hospital LIS.

6. The apparatus of claim 5 , wherein the apparatus is configured to process the sample based on the pending test order and the ADF.

7. The apparatus of claim 4 , wherein the apparatus is configured to send the detection report to a component that can transmit/receive information to/from a LIS.

8. The apparatus of claim 4 , wherein the apparatus is configured to send the detection report directly to a physician or to a hospital LIS.

9. The apparatus of claim 4 , wherein the apparatus is configured to allow an operator to apply comments to the detection report.

10. The apparatus of claim 1 , wherein the apparatus is configured to send control reports, system usage reports or service notification reports.

11. An apparatus for processing and analyzing a sample comprising:

a system that comprises a sample processing bay and an assay analysis module (AAM), the system including a processor coupled to a non-transitory computer readable medium, the non-transitory computer readable medium storing instructions directing the processor to:

receive and read an ADF from an external source comprising a first set of control parameters for processing a fluid sample, sensing parameters that are a function of a particular molecular detection taking place in the apparatus, and analysis parameters, wherein the analysis parameters comprise the selection of one or more digital filters to be applied from a group of two or more digital filters to process the data;

send control instructions based on the control parameters and the sensing parameters to the sample processing bay; and

send analysis instructions based on the analysis parameters to the AAM.

12. The apparatus of claim 11 , wherein the analysis parameters further comprise protocols for determining how to interpret digitally processed data, protocols for determining the presence of one or more targets, or report generators to analyze the data.

13. The apparatus of claim 11 , wherein the analysis parameters further comprise the selection of at least a second digital filter from the group of two or more digital filters for analyzing the data.

14. The apparatus of claim 11 , further comprising a sample processing bay having a sample preparation module to prepare the sample for detection according to a first set of the control parameters.

15. The apparatus of claim 14 , wherein the sample processing bay operates a sample reaction module to detect a target analyte according to a second set of the control parameters.

16. The apparatus of claim 11 , wherein the first set of control parameters define the operation of a blister compression assembly.

17. The apparatus of claim 11 , wherein the ADF further comprises a second set of control parameters that define electrowetting parameters.

18. An apparatus for processing and analyzing a sample comprising:

a system that comprises a sample processing bay and an assay analysis module (AAM), the system including a processor coupled to a non-transitory computer readable medium, the non-transitory computer readable medium storing instructions directing the processor to:

receive and read an ADF from an external source comprising a first set of control parameters for processing a fluid sample, sensing parameters for generating sense electrode data from the sample processing bay, and analysis parameters that define the selection of one or more digital filters to be applied from a group of two or more digital filters to process the sense electrode data, and optionally further define one or more of (1) which sense electrode data is to be analyzed, (2) which electrodes are to be processed for a given digital processing filter, (3) protocol for determining how to interpret digitally processed data, or (4) a protocol for determining the presence of one or more targets.

19. The apparatus of claim 18 , wherein the sensing parameters are electrosensing parameters.

20. The apparatus of claim 18 , wherein the sensing parameters comprise a number of electrons exchanged in a given redox reaction during detection or activation energy of a reaction measured in volts.