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Python autocorr#2

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GabGabG wants to merge 57 commits intomasterDCC-Lab/HiLoZebrafish:masterfrom PythonAutocorrDCC-Lab/HiLoZebrafish:PythonAutocorrCopy head branch name to clipboard

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Commits on Jun 17, 2020

• autocorrelation (articles version)

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• added the "fiji like" method

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Commits on Jun 18, 2020

• modifications of the FIJI-like script

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• fixed useless use of where

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Commits on Jun 19, 2020

• Added a gaussian fit on the vertical slice

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• showing a "potential" FWHM

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Commits on Jul 8, 2020

• normalized tif files (gaussian filter normalization with std dev = 75)

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• new file for speckle simulations

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• new images for simulation

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• new file for gaussian normalization

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• small changes

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Commits on Jul 9, 2020

• wrong names

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• simplified some code

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• small changes

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• normalized tif files

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Commits on Jul 13, 2020

• new simulations with gaussian spots

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• Update specklesSimulation.py

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Commits on Jul 14, 2020

• png is not the right format

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• new simultation methods with uniformaly distributed phases

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• new simulation files

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• forgot one file in the revious commit

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Commits on Jul 15, 2020

• started using dcclab

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• moved simulations of fully developped speckles to another file

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• added a class for not fully developped speckles (sum of fully developped)

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Commits on Jul 24, 2020

• Delete autocorrFIJILike.py

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• minor changes

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• new simulated images and removal of previous simulations

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• minor changes

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Commits on Jul 27, 2020

• OOP approach

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• new utilitary classes started

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• new methods for the autocorrelation

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Commits on Jul 28, 2020

• new methods to find FWHM (not tested yet)

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Commits on Jul 29, 2020

• we now apply a median fitler

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• new class for speckles caracterization

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• update FWHM finding methods

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• ajout de méthodes permettant d'ajouter du bruit

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• Merge branch 'PythonAutocorr' into AutocorrLudo

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• added a way to change the size of the image with linear interpolation

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Commits on Jul 30, 2020

• updated the code for the scaling to improve performance

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• new methods, algorithms and minor changes

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• minor changes in nomenclature

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Commits on Jul 31, 2020

• Merge branch 'PythonAutocorr' into AutocorrLudo

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• only using FFT autocorrelation

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• changed FWHM / HWHM methods

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• update to fit with previous changes

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Commits on Aug 3, 2020

• minor removal

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• minor changes, removal of useless stuff

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• Delete utils.py

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Commits on Aug 4, 2020

• méthodes pour ajuster l'uniformité

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Commits on Aug 5, 2020

• sigma and n values are now modifiable in the nonUniformIntensity method

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• major updates

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• Merge branch 'PythonAutocorr' into AutocorrLudo

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• minor fixes

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• saving simulations to look at how the avg diameter is affected

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• Merge branch 'PythonAutocorr' into AutocorrLudo

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• path fix

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Commits on Aug 12, 2020

• Merge branch 'AutocorrLudo' into PythonAutocorr

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