MATLAB_Data_Plots/diff_simulated_fields.m at main · Neuro-Mechatronics-Interfaces/MATLAB_Data_Plots · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
function fig = diff_simulated_fields(SUBJ, YYYY, MM, DD, BLOCK_A, BLOCK_B, varargin)
%DIFF_SIMULATED_FIELDS  Plots difference between simulated fields from Block_A and Block_B
%
% fig = plot.diff_simulated_fields(SUBJ, YYYY, MM, DD, BLOCK_A, BLOCK_B);
%
% Inputs:
%   SUBJ  - Subject name (e.g. 'Frank' or "Frank")
%   YYYY  - Year (numeric or string, e.g. 2021 or "2021" or '2021')
%   MM    - Month (numeric or string, e.g. 11 or "11" or '11')
%   DD    - Day   (numeric or string, e.g. 18 or "18" or '18')
%   BLOCK_A - Recording parameter key for first block. "Red" diff values
%               (positive) correspond to spatial regions in which this
%               block field is strong compared to BLOCK_B.
%   BLOCK_B - Recording parameter key for the second block. "Blue" diff
%               values (negative) correspond to spatial regions in which
%               this block field is strong compared to BLOCK_A.
%   varargin - (Optional) 'Name', value parameter field/value pairs.
%
% Output:
%   fig   - Figure handle. If no output is requested, figures are
%           automatically saved and deleted using `default.savefig`. The
%           output saved results are in `generated_data` and follow the
%           naming convention provided by the input arguments.
%
% See also: Contents, load_block_simulation

pars = struct;
pars.CLim_Delta = [];
pars.CMap_Delta = 'bone';
pars.CLim_Rho = [0 9];
pars.CMap_Rho = 'winter';
[pars.Output_Root, pars.Version] = parameters('generated_data_folder', 'version');

% Handle parsing of `pars`
pars = utils.parse_parameters(pars, varargin{:});

if (numel(BLOCK_A) > 1) || (numel(BLOCK_B) > 1)
    if numel(BLOCK_A) ~= numel(BLOCK_B)
        error('If BLOCK_A or BLOCK_B is an array, then both BLOCK_A and BLOCK_B must have an equal number of elements.');
    end
    if nargout < 1
        for iB = 1:numel(BLOCK_A)
            plot.diff_simulated_fields(SUBJ, YYYY, MM, DD, BLOCK_A(iB), BLOCK_B(iB), pars);
        end
    else
        fig = gobjects(size(BLOCK_A));
        for iB = 1:numel(BLOCK_A)
            fig(iB) = plot.diff_simulated_fields(SUBJ, YYYY, MM, DD, BLOCK_A(iB), BLOCK_B(iB), pars);
        end
    end
    return;
end

[YYYY, MM, DD] = utils.parse_date_args(YYYY, MM, DD);

% Get the two simulated datasets
F_a = io.load_block_simulation(SUBJ, YYYY, MM, DD, BLOCK_A);
F_b = io.load_block_simulation(SUBJ, YYYY, MM, DD, BLOCK_B);

% Compute the deltas over full mesh
delta_Z = F_a.CData - F_b.CData;
[deltaGlobalMax, ~] = max(abs(delta_Z(:)));
[deltaMax, iDeltaMax] = max(delta_Z(:));
[deltaMin, iDeltaMin] = min(delta_Z(:));

% Compute products over full mesh using normalized values
z_a = (F_a.CData-mean(F_a.CData(:))) ./ std(F_a.CData(:));
z_b = (F_b.CData-mean(F_b.CData(:)))./std(F_b.CData(:));
rho_Z = z_a .* z_b;
[rhoMax, iRhoMax] = max(rho_Z(:));

% Convert mesh to milliseconds
X = F_a.x*1e3;
Y = F_a.y*1e3;

% Get pattern names
[~, fa, ~] = fileparts(F_a.pattern_file);
fa = strrep(fa, '_', '\_');
[~, fb, ~] = fileparts(F_b.pattern_file);
fb = strrep(fb, '_', '\_');

% Generate figure
fig = figure('Name', 'Simulated Field Differences',...
         'Units','Normalized', ...
         'Position',[0.1 0.1 0.8 0.8],...
         'Color', 'w', ...
         'UserData', struct('Version', pars.Version, 'pars', pars));
L = tiledlayout(fig, 1, 2);
% First, show the delta grid
ax = nexttile(L);
set(ax, 'XLim', [min(X) max(X)], 'YLim', [min(Y), max(Y)], ...
    'FontName', 'Tahoma', 'FontSize', 14, 'XColor', 'k', 'YColor', 'k', ...
    'LineWidth', 1.5, 'NextPlot', 'add', 'XDir', 'reverse', ...
    'CLim', [-deltaGlobalMax, deltaGlobalMax]);
colormap(ax, pars.CMap_Delta);
imagesc(ax, X, Y, delta_Z);
Y = F_a.X*1e3;
X = F_a.Y*1e3;
scatter(ax, X(iDeltaMax), Y(iDeltaMax), 16, 'b', 'Marker', 'o', 'LineWidth', 2.5);
txt = sprintf('   \\leftarrow <%3.1f, %3.1f>: %3.1fmA/cm^2', round(X(iDeltaMax), 1), round(Y(iDeltaMax), 1), round(deltaMax, 1));
text(ax, X(iDeltaMax), Y(iDeltaMax), txt, 'Color', 'b', ...
    'FontWeight', 'bold', 'FontSize', 14, ...
    'HorizontalAlignment', 'left', 'FontName', 'Tahoma');
scatter(ax, X(iDeltaMin), Y(iDeltaMin), 16, 'r', 'Marker', 'o', 'LineWidth', 2.5);
txt = sprintf('   \\leftarrow <%3.1f, %3.1f>: %3.1fmA/cm^2', round(X(iDeltaMin), 1), round(Y(iDeltaMin), 1), round(deltaMin, 1));
text(ax, X(iDeltaMin), Y(iDeltaMin), txt, 'Color', 'r', ...
    'FontWeight', 'bold', 'FontSize', 14, ...
    'HorizontalAlignment', 'left', 'FontName', 'Tahoma');

xlabel(ax, 'ML (mm)', 'FontName', 'Tahoma', 'FontSize', 18, 'FontWeight', 'bold');
ylabel(ax, 'AP (mm)', 'FontName', 'Tahoma', 'FontSize', 18, 'FontWeight', 'bold');
title(ax, '\Delta(A, B)', ...
    'FontName', 'Tahoma', 'FontSize', 20, 'FontWeight', 'bold');
c = colorbar(ax);
set(c.Label, ...
    'FontName', 'Tahoma', ...
    'FontSize', 14, ...
    'Color', 'k', ...
    'String', 'mA/cm^2');
if ~isempty(pars.CLim_Delta)
    set(ax, 'CLim', pars.CLim_Delta);
end

% Next, show the cross-correlation grid
ax = nexttile(L);
% Convert mesh to milliseconds
X = F_b.x*1e3;
Y = F_b.y*1e3;
set(ax, 'XLim', [min(X) max(X)], 'YLim', [min(Y), max(Y)], ...
    'FontName', 'Tahoma', 'FontSize', 14, 'XColor', 'k', 'YColor', 'k', ...
    'LineWidth', 1.5, 'NextPlot', 'add', 'XDir', 'reverse');
colormap(ax, pars.CMap_Rho);
imagesc(ax, X, Y, rho_Z);
Y = F_b.X*1e3;
X = F_b.Y*1e3;
scatter(ax, X(iRhoMax), Y(iRhoMax), 16, 'w', 'Marker', 'o', 'LineWidth', 1.5);
txt = sprintf('   \\leftarrow <%3.1f, %3.1f>: %3.1f', round(X(iRhoMax), 1), round(Y(iRhoMax), 1), round(rhoMax, 1));
text(ax, X(iRhoMax), Y(iRhoMax), txt, 'Color', 'w', ...
    'FontWeight', 'bold', 'FontSize', 14, ...
    'HorizontalAlignment', 'left', 'FontName', 'Tahoma');

xlabel(ax, 'ML (mm)', ...
    'FontName', 'Tahoma', ...
    'FontSize', 18,       ...
    'FontWeight', 'bold');
title(ax, 'z(A) .* z(B)', ...
    'FontName', 'Tahoma', ...
    'FontSize', 20, ...
    'FontWeight', 'bold');
title(L, ['||J|| Comparison' newline sprintf('(A) %s vs (B) %s', fa, fb)], ...
    'FontName', 'Tahoma', 'FontSize', 24, 'FontWeight', 'bold');
c = colorbar(ax);
set(c.Label, ...
    'FontName', 'Tahoma', ...
    'FontSize', 14, ...
    'Color', 'k', ...
    'String', '(z-score^2)');
if ~isempty(pars.CLim_Rho)
    set(ax, 'CLim', pars.CLim_Rho);
end

if nargout < 1
    tank = sprintf('%s_%04d_%02d_%02d', SUBJ, YYYY, MM, DD); % data "tank"
    out_folder = fullfile(pars.Output_Root, SUBJ, tank, 'figures', 'Stim_Differences');
    if exist(out_folder, 'dir') == 0
        try %#ok<TRYNC>
            mkdir(out_folder);
        end
    end
    out_name = fullfile(out_folder, sprintf('%s_Stim_Difference', tank));
    default.savefig(fig, out_name, sprintf("%s-%s", num2str(BLOCK_A), num2str(BLOCK_B)), false);
end

end