| CPC A61B 5/082 (2013.01) [A61B 5/7282 (2013.01); A61B 10/00 (2013.01); G01J 3/18 (2013.01); G01J 3/45 (2013.01); G01N 1/42 (2013.01); G01N 21/255 (2013.01); G01N 21/3504 (2013.01); G01N 21/359 (2013.01); G01N 33/497 (2013.01); A61B 5/097 (2013.01); A61B 2010/0087 (2013.01); G01N 33/4975 (2024.05); G01N 2201/063 (2013.01)] | 22 Claims |

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1. A system comprising:
at least one processor; and
memory containing instructions to configure the at least one processor to perform the steps of:
identifying dark noise caused by changes in thermal energy of a first spectrometer by taking first measurements with the first spectrometer while projecting a first light through a transport medium;
normalizing the function of the first spectrometer by taking second measurements with the first spectrometer of a first known substance, identifying at least one peak spectral intensity of the second measurements and identifying a normalization adjustment such that the at least one peak spectral intensity is modified to be approximate to an expected spectral intensity for the first known substance, the normalization adjustment assisting in flat fielding a spectral sensor of the first spectrometer;
measuring first measurements using the first spectrometer by projecting a third light through a biological sample of a first patient and a vortex mask to create third measurements based on absorption and transmittance of the first light through the biological sample, the dark noise being removed from the first measurements and the normalization adjustment being applied to create the third measurements, the vortex mask providing destructive interference of the third light;
comparing the third measurements to a set of reference measurements; and
when a subset of the third measurements match or exceed at least a subset of the set of reference measurements, providing an alert indicating presence of a pathogen in the biological sample of the first patient.
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