-
Notifications
You must be signed in to change notification settings - Fork 0
/
sp_boxplot_slim.m
181 lines (163 loc) · 7.38 KB
/
sp_boxplot_slim.m
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
175
176
177
178
179
180
181
function [min_y max_y patch_handles] = sp_boxplot_slim(data, xlabels, rotate_xlabels, font_size, text_above_box, text_above_box_font_size, marker_type, ignore_potential_outliers)
% function [min_y max_y patch_handles] = sp_boxplot_slim(data, xlabels, rotate_xlabels, plot_lines, font_size, text_above_box, text_above_box_font_size, marker_type, ignore_potential_outliers)
%
% Plots a box plot with thin bars- works well when data contains a lot of columns
% Plots median, mean, 1st and 3rd quartiles (25th, 75th percentiles), and 5th 95th percentiles as the min and max
%
% INPUTS:
% data : [matrix] with data in columns OR [cell] with a vector in every cell
% [xlabels]: [cell array] of string names for the x-axis
% [rotate_xlabels]: [bool] Default: false
% [font_size] : [int] Default: 12
% [text_above_box]: [cell array] of strings to print above each box
% [text_above_box_font_size] : [int] Default: 10
% [marker_type] : [string] Type of marker for the whiskers: 'line' (Default), 'arrow'
% [ignore_potential_outliers]: [bool] Default: false. Rescales y-axis to ignore potential outliers
%
% OUTPUTS:
% min_y : [int] Minimal Y value across all bars
% max_y : [int] Maximal Y value across all bars
% patch_handles: [handles] to the bar patches
%
% Sagi Perel, 03/2012
if(nargin < 1 || nargin > 8)
error('sp_boxplot_slim: wrong number of input arguments provided');
end
if(iscell(data))
if(~any(cellfun(@isvector, data)))
error('sp_boxplot_slim: when data is a cell array, every cell must contain only vectors');
end
num_variables = length(data);
num_samples_per_variable = cellfun(@length, data);
if(any(num_samples_per_variable<2))
error('sp_boxplot_slim: every variable should have more than 2 samples');
end
elseif(ismatrix(data))
[num_samples num_variables] = size(data);
if(num_samples < 2)
error('sp_boxplot_slim: data should have more than 2 samples');
end
else
error('sp_boxplot_slim: data should be a cell array or a matrix');
end
if(~exist('xlabels','var') || isempty(xlabels))
xlabels = get_array_as_string_cell(1:num_variables);
else
if(length(xlabels) ~= num_variables)
error('sp_boxplot_slim: length(xlabels) ~= num_variables');
end
end
if(~exist('rotate_xlabels','var') || isempty(rotate_xlabels))
rotate_xlabels = false;
end
if(~exist('font_size','var') || isempty(font_size))
font_size = 12;
end
if(~exist('text_above_box','var') || isempty(text_above_box))
text_above_box = cell(1, num_variables);
for i=1:num_variables
text_above_box{i} = '';
end
elseif(~iscell(text_above_box))
error('sp_boxplot_slim: text_above_box should be a cell array');
elseif(length(text_above_box) ~= num_variables)
error('sp_boxplot_slim: length(text_above_box) ~= num_variables');
elseif(~all(cellfun(@ischar, text_above_box)))
error('sp_boxplot_slim: text_above_box should be a cell array of strings');
end
if(~exist('text_above_box_font_size','var') || isempty(text_above_box_font_size))
text_above_box_font_size = 12;
end
if(~exist('marker_type','var') || isempty(marker_type))
marker_type = 'line';
elseif(~ischar(marker_type))
error('sp_boxplot_slim: marker_type should be a string');
elseif(~any(strcmp(marker_type,{'line','arrow'})))
error(['sp_boxplot_slim: unknown value [' marker_type '] for marker_type']);
end
if(~exist('ignore_potential_outliers','var') || isempty(ignore_potential_outliers))
ignore_potential_outliers = false;
end
if(iscell(data))
data_mean = cellfun(@nanmean, data);
data_median = cellfun(@nanmedian, data);
else
data_mean = nanmean(data);
data_median = nanmedian(data);
end
prctiles = nan(4,num_variables);
for i=1:num_variables
if(iscell(data))
Y = prctile(data{i},[5 25 75 95]);
else
Y = prctile(data(:,i),[5 25 75 95]);
end
prctiles(:,i) = Y;
end
% estimate min & max Y values and Y range for this plot
if(ignore_potential_outliers)
min_y = prctile(prctiles(1,:),5);
max_y = prctile(prctiles(4,:),95);
y_range = max_y - min_y;
else
min_y = min(prctiles(1,:));
max_y = max(prctiles(4,:));
y_range = max_y - min_y;
end
%figure;
hold on;
x_spacing = 1;
x = 1 : x_spacing : x_spacing*num_variables;
patch_color = [.8 .8 .8];
font_name = 'AvantGarde';
bar_half_width = 0.4; % bar width leave 10% spacing on every side of the bar
mean_line_width = 2;
mean_line_color = 'k';
mean_line_style = '-';
median_line_width = 3;
median_line_color = 'r';
median_line_style = ':';
patch_handles = nan(1,num_variables);
for i=1:num_variables
min_x = x(i)-bar_half_width;
max_x = x(i)+bar_half_width;
xpos = [min_x max_x];
% plot a patch for the 1st and 3rd quartiles
this_min_y = prctiles(2,i);
this_max_y = prctiles(3,i);
X = [min_x; min_x; max_x; max_x];
Y = [this_min_y; this_max_y; this_max_y; this_min_y];
tcolor(1,1,1:3) = patch_color;
% X and Y are m-by-n matrices, MATLAB draws n polygons with m vertices.
h(i) = patch(X,Y,tcolor);
% plot a line for the mean
line(xpos, [data_mean(i) data_mean(i)],'LineWidth',mean_line_width,'Color',mean_line_color,'LineStyle',mean_line_style);
% plot a line for the median
line(xpos, [data_median(i) data_median(i)],'LineWidth',median_line_width,'Color',median_line_color,'LineStyle',median_line_style);
% plot the 5th and 95th percentiles
switch(marker_type)
case 'line'
line(xpos, [prctiles(1,i) prctiles(1,i)],'LineWidth',1,'Color','k','LineStyle','-');
line(xpos, [prctiles(4,i) prctiles(4,i)],'LineWidth',1,'Color','k','LineStyle','-');
case 'arrow'
plot(x(i), prctiles(1,i), 'Marker', 'v', 'MarkerEdgeColor', 'k', 'MarkerFaceColor', 'k', 'MarkerSize', 6);
plot(x(i), prctiles(4,i), 'Marker', '^', 'MarkerEdgeColor', 'k', 'MarkerFaceColor', 'k', 'MarkerSize', 6);
end
% plot lines from 1st and 3rd quartiles to the 5th and 95th percentiles
line([x(i) x(i)], [prctiles(1,i) prctiles(2,i)],'LineWidth',1,'Color','k','LineStyle','-');
line([x(i) x(i)], [prctiles(3,i) prctiles(4,i)],'LineWidth',1,'Color','k','LineStyle','-');
% display text (if any) above the 95th percentile line
text(min_x, prctiles(4,i)+y_range*0.05, text_above_box{i}, 'FontSize',text_above_box_font_size,'FontName',font_name);
end
hold off;
if(ignore_potential_outliers)
ylim([min_y max_y]);
end
if(~isempty(xlabels))
set_axis_labels(gca, x, xlabels, 'x');
end
if(rotate_xlabels)
make_plot_nicer(0,0,font_size,['font_' font_name],'axis_x_rotate_label','axis_none');
else
make_plot_nicer(0,0,font_size,['font_' font_name],'axis_none');
end