run_Ana_Speckle

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Calculates the blood flow from the Laser Contrast Speckle Imaging (LSCI) data.

Description

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This function uses the raw LSCI data stored in the file speckle.dat and calculates flow of imaged blood vessels (in arbitrary units). The algorithm used in this function is described in [1].

Input

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A .dat file containing image time series (with dimensions Y,X,T) with raw LSCI data.

Output

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Image time series (with dimensions Y,X,T) with the blood flow values in arbitrary units.

Parameters

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If true, the function normalizes the blood flow values of each pixel by its temporal average.

Name of the .dat file containing the raw LSCI data.

References

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1. Boas, David A., and Andrew K. Dunn. ‘Laser Speckle Contrast Imaging in Biomedical Optics’. Journal of Biomedical Optics 15, no. 1 (February 2010): 011109. https://doi.org/10.1117/1.3285504.