update chapter about granulometry

doc/userManual/images/imGranulo/granulo_coins.m

@@ -0,0 +1,56 @@
+% Demo script for granulometry applied on grayscale image of coins.
+%
+%   output = granulo_coins(input)
+%
+%   Example
+%   granulo_coins
+%
+%   See also
+%
+
+% ------
+% Author: David Legland
+% e-mail: david.legland@inrae.fr
+% INRAE - BIA Research Unit - BIBS Platform (Nantes)
+% Created: 2023-01-17,    using Matlab 9.13.0.2049777 (R2022b)
+% Copyright 2023 INRAE.
+
+%% Sample image
+
+% read image
+img = imread('coins.png');
+imwrite(img, 'coins.png');
+
+% compute several steps (before, between and after the two peaks)
+radiusList = [15 27 35];
+for iPlot = 1:3
+    se = strel('disk', radiusList(iPlot), 0);
+    imgOp = imopen(img, se);
+
+    imwrite(imgOp, sprintf('coins_OpDisk%02d.tif', radiusList(iPlot)));
+end
+
+
+%% compute granulo.
+
+% granulometry analysis setup
+xi = 1:60;
+vol0 = sum(img(:));
+[gr, diams, vol] = imGranulo(img, 'opening', 'disk', xi);
+
+% display granulo
+figure; plot(diams, gr, 'color', 'b', 'linewidth', 2);
+xlim([0 100]);
+xlabel('Diameter of structuring element (pixels)');
+ylabel('Variation of gray levels (%)');
+title('Gray level granulometry by opening', 'Interpreter', 'none');
+print(gcf, 'coins_grOpDk30.png', '-dpng');
+
+% display volume curve
+figure; plot([0 diams], vol, 'color', 'b', 'linewidth', 2);
+xlim([0 100]);
+xlabel('Diameter of structuring element (pixels)');
+ylabel('Sum of gray levels');
+title('Gray level granulometry by opening', 'Interpreter', 'none');
+print(gcf, 'coins_grOpDk40_sumOfGrays.png', '-dpng');
+

doc/userManual/matImage-manual.bib

@@ -631,4 +631,30 @@ @Article{Hu1962
   timestamp = {2021.07.09},
 }
 
+@Article{Melelli2020,
+  author    = {Alessia Melelli and Frédéric Jamme and David Legland and Johnny Beaugrand and Alain Bourmaud},
+  journal   = {Industrial Crops and Products},
+  title     = {Microfibril angle of elementary flax fibres investigated with polarised second harmonic generation microscopy},
+  year      = {2020},
+  issn      = {0926-6690},
+  pages     = {112847},
+  volume    = {156},
+  doi       = {https://doi.org/10.1016/j.indcrop.2020.112847},
+  file      = {:Melelli_2020_IndCropProd.pdf:PDF},
+  groups    = {dlegland, Fibres},
+  keywords  = {SHG, Microfibril angle, Elementary fibres, Flax fibres, Image analysis},
+  timestamp = {2020.08.12},
+  url       = {http://www.sciencedirect.com/science/article/pii/S0926669020307640},
+}
+
+@Article{Legland_2020_PlantMethods,
+  author  = {Legland, David and Guillon, Fabienne and Devaux, Marie-Fran\c{c}oise},
+  journal = {Plant Methods},
+  title   = {Parametric mapping of cellular morphology in plant tissue sections by gray level granulometry},
+  year    = {2020},
+  number  = {63},
+  volume  = {16},
+  doi     = {https://doi.org/10.1186/s13007-020-00603-7},
+}
+
 @Comment{jabref-meta: databaseType:bibtex;}