Exponential fit based attenuation correction
#include "dip_microscopy.h"
dip_Error dip_ExponentialFitCorrection ( in, out, method, percentile, fromWhere, hysteresis, varWeighted )
binary, integer, float
This routine implements a simple absorption, reflection and bleaching correction based upon the assumption that the sum of these effects result in a exponential extinction of the signal as a function of depth. Only pixels that are non-zero are taken into account. Depending upon the chosen method, the mean or a percentile of all the non-zero pixels are calculated as a function of the slice number (depth). Then an exponential function is fitted through these slice-representing values. The starting point of the fit is determined by fromWhere. The first maximum is found with point[z+1] > hysteresis * point[z]. If the mean variant is chosen one can chose to apply a variance weighting to the fit.
| Data type | Name | Description |
| dip_Image | in | Input image |
| dip_Image | out | Output image |
| dipf_ExpFitData | method | Data statistic to fit on |
| dip_float | percentile | Percentile |
| dipf_ExpFitStart | fromWhere | From where to start the fit |
| dip_float | hysteresis | First maximum hysteresis |
| dip_Boolean | varWeighted | Fit with variance weights |
The dipf_ExpFitData enumaration consists of the following flags:
| Name | Description |
| DIP_ATTENUATION_EXP_FIT_DATA_MEAN | Fit on the mean values |
| DIP_ATTENUATION_EXP_FIT_DATA_PERCENTILE | Fit on the specified percentile of the data |
The dipf_ExpFitStart enumaration consists of the following flags:
| Name | Description |
| DIP_ATTENUATION_EXP_FIT_START_FIRST_PIXEL | Start fit on first pixel |
| DIP_ATTENUATION_EXP_FIT_START_GLOBAL_MAXIMUM | Start fit on global maximum |
| DIP_ATTENUATION_EXP_FIT_START_FIRST_MAXIMUM | Start fit on first maximum |
K.C. Strasters, H.T.M. van der Voort, J.M. Geusebroek, and A.W.M. Smeulders, "Fast attenuation correction in fluorescence confocal imaging: a recursive approach", BioImaging, vol. 2, no. 2, 1994, 78-92.
Karel Strasters, adapted to DIPlib by Geert van Kempen.