phasorpy._phasorpy

Note

This module and its functions are not part of the public interface. They are intended to facilitate the development of the PhasorPy library.

Cython implementation of low-level functions for the PhasorPy library.

phasorpy._phasorpy._gaussian_signal(signal, mean, stdev)

Return normal distribution, wrapped around at borders.

Parameters:

• signal (memoryview of float32 or float64) – Writable buffer where calculated signal samples are stored.

• mean (float) – Mean of normal distribution.

• stdev (float) – Standard deviation of normal distribution.

phasorpy._phasorpy._median_filter_2d(image, filtered_image, kernel_size, repeat=1, num_threads=1)

Apply 2D median filter ignoring NaN.

phasorpy._phasorpy._phasor_from_lifetime(phasor, frequency, lifetime, fraction, unit_conversion, preexponential)

Calculate phasor coordinates from lifetime components.

Parameters:

• phasor (3D memoryview of float32 or float64) –

  Writable buffer of three dimensions where calculated phasor coordinates are stored:

  0. real and imaginary components

  1. frequencies

  2. lifetimes or fractions

• frequency (2D memoryview of float64) – One-dimensional sequence of laser-pulse or modulation frequencies.

• lifetime (2D memoryview of float64) –

  Buffer of two dimensions:

  0. lifetimes

  1. components of lifetimes

• fraction (2D memoryview of float64) –

  Buffer of two dimensions:

  0. fractions

  1. fractions of lifetime components

• unit_conversion (float) – Product of frequency and lifetime units’ prefix factors. 1e-3 for MHz and ns. 1.0 for Hz and s.

• preexponential (bool) – If true, fractions are pre-exponential amplitudes, else fractional intensities.

phasorpy._phasorpy._phasor_from_signal(phasor, signal, sincos, normalize, num_threads)

Return phasor coordinates from signal along middle axis.

Parameters:

• phasor (3D memoryview of float32 or float64) –

  Writable buffer of three dimensions where calculated phasor coordinates are stored:

  0. mean, real, and imaginary components

  1. lower dimensions flat

  2. upper dimensions flat

• signal (3D memoryview of float32 or float64) –

  Buffer of three dimensions containing signal:

  0. lower dimensions flat

  1. dimension over which to compute FFT, number samples

  2. upper dimensions flat

• sincos (3D memoryview of float64) –

  Buffer of three dimensions containing sine and cosine terms to be multiplied with signal:

  0. number harmonics

  1. number samples

  2. cos and sin

• normalize (bool) – Normalize phasor coordinates.

• num_threads (int) – Number of OpenMP threads to use for parallelization.

Notes

This implementation requires contiguous input arrays.

phasorpy._phasorpy._phasor_from_signal_vector(phasor, signal, sincos, num_threads)

Calculate phasor coordinate vectors from signal along last axis.

Parameters:

• phasor (2D memoryview of float32 or float64) –

  Writable buffer of two dimensions where calculated phasor vectors are stored:

  0. other dimensions flat

  1. real and imaginary components

• signal (2D memoryview of float32 or float64) –

  Buffer of two dimensions containing signal:

  0. other dimensions flat

  1. dimension over which to compute FFT, number samples

• sincos (3D memoryview of float64) –

  Buffer of three dimensions containing sine and cosine terms to be multiplied with signal:

  0. number harmonics

  1. number samples

  2. cos and sin

• num_threads (int) – Number of OpenMP threads to use for parallelization.

Notes

This implementation requires contiguous input arrays.

phasorpy._phasorpy._signal_denoise_vector(denoised, integrated, signal, spectral_vector, sigma, vmin, num_threads)

Calculate denoised signal from spectral_vector.