clabtoolkit 0.3.3__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (28) hide show
  1. clabtoolkit/__init__.py +5 -0
  2. clabtoolkit/bidstools.py +2260 -0
  3. clabtoolkit/config/bids.json +147 -0
  4. clabtoolkit/config/config.json +58 -0
  5. clabtoolkit/config/lobes.json +112 -0
  6. clabtoolkit/config/stats_mapping.json +140 -0
  7. clabtoolkit/config/viz_views.json +268 -0
  8. clabtoolkit/connectivitytools.py +0 -0
  9. clabtoolkit/dicomtools.py +941 -0
  10. clabtoolkit/dwitools.py +1999 -0
  11. clabtoolkit/freesurfertools.py +5378 -0
  12. clabtoolkit/imagetools.py +2734 -0
  13. clabtoolkit/misctools.py +5204 -0
  14. clabtoolkit/morphometrytools.py +2970 -0
  15. clabtoolkit/networktools.py +351 -0
  16. clabtoolkit/parcellationtools.py +3239 -0
  17. clabtoolkit/pipelinetools.py +1187 -0
  18. clabtoolkit/plottools.py +682 -0
  19. clabtoolkit/qcqatools.py +1305 -0
  20. clabtoolkit/segmentationtools.py +356 -0
  21. clabtoolkit/surfacetools.py +2785 -0
  22. clabtoolkit/visualizationtools.py +5575 -0
  23. clabtoolkit-0.3.3.dist-info/METADATA +212 -0
  24. clabtoolkit-0.3.3.dist-info/RECORD +28 -0
  25. clabtoolkit-0.3.3.dist-info/WHEEL +5 -0
  26. clabtoolkit-0.3.3.dist-info/licenses/AUTHORS.rst +13 -0
  27. clabtoolkit-0.3.3.dist-info/licenses/LICENSE +16 -0
  28. clabtoolkit-0.3.3.dist-info/top_level.txt +1 -0
clabtoolkit/config/viz_views.json ADDED
@@ -0,0 +1,268 @@
1
+ {
2
+ "figure_conf": {
3
+ "background_color": "white",
4
+ "title_font_type": "times",
5
+ "title_font_size": 11,
6
+ "title_font_color": "black",
7
+ "title_shadow": false,
8
+ "colorbar_size": 0.2,
9
+ "colorbar_font_type": "times",
10
+ "colorbar_font_size": 10,
11
+ "colorbar_title_font_size": 12,
12
+ "colorbar_font_color": "black",
13
+ "colorbar_outline": false,
14
+ "colorbar_n_labels": 11,
15
+ "mesh_ambient": 0.2,
16
+ "mesh_diffuse": 0.6,
17
+ "mesh_specular": 0.4,
18
+ "mesh_specular_power": 50,
19
+ "mesh_smooth_shading": true
20
+ },
21
+ "views_conf": {
22
+
23
+ "lh-lateral":{"title": "Lateral view",
24
+ "view": "yz",
25
+ "azimuth": 180,
26
+ "elevation": 0,
27
+ "zoom": 1.2
28
+ },
29
+ "lh-medial":{"title": "Medial view",
30
+ "view": "yz",
31
+ "azimuth": 0,
32
+ "elevation": 0,
33
+ "zoom": 1.2
34
+ },
35
+ "lh-dorsal":{"title": "Dorsal view",
36
+ "view": "xy",
37
+ "azimuth": 0,
38
+ "elevation": 0,
39
+ "zoom": 1.18
40
+ },
41
+ "lh-ventral":{"title": "Ventral view",
42
+ "view": "xy",
43
+ "azimuth": 180,
44
+ "elevation": 0,
45
+ "zoom": 1.18
46
+ },
47
+ "lh-rostral":{"title": "Rostral view",
48
+ "view": "xz",
49
+ "azimuth": 180,
50
+ "elevation": 0,
51
+ "zoom": 1.3
52
+ },
53
+ "lh-caudal":{"title": "Caudal view",
54
+ "view": "xz",
55
+ "azimuth": 0,
56
+ "elevation": 0,
57
+ "zoom": 1.3
58
+ },
59
+ "rh-lateral":{"title": "Lateral view",
60
+ "view": "yz",
61
+ "azimuth": 0,
62
+ "elevation": 0,
63
+ "zoom": 1.2
64
+ },
65
+ "rh-medial":{"title": "Medial view",
66
+ "view": "yz",
67
+ "azimuth": 180,
68
+ "elevation": 0,
69
+ "zoom": 1.2
70
+ },
71
+ "rh-dorsal":{"title": "Dorsal view",
72
+ "view": "xy",
73
+ "azimuth": 0,
74
+ "elevation": 0,
75
+ "zoom": 1.18
76
+ },
77
+ "rh-ventral":{"title": "Ventral view",
78
+ "view": "xy",
79
+ "azimuth": 180,
80
+ "elevation": 0,
81
+ "zoom": 1.18
82
+ },
83
+ "rh-rostral":{"title": "Rostral view",
84
+ "view": "xz",
85
+ "azimuth": 0,
86
+ "elevation": 0,
87
+ "zoom": 1.3
88
+ },
89
+ "rh-caudal":{"title": "Caudal view",
90
+ "view": "xz",
91
+ "azimuth": 180,
92
+ "elevation": 0,
93
+ "zoom": 1.3
94
+ }
95
+ },
96
+
97
+ "layouts_conf":{
98
+ "8_views": {
99
+ "shape": [2,4],
100
+ "views": [
101
+ "lh-lateral", "merg-dorsal", "merg-ventral","rh-lateral",
102
+ "lh-medial","merg-rostral", "merg-caudal", "rh-medial"
103
+ ],
104
+ "description": "Standard 8 views for both hemispheres"
105
+ },
106
+ "8_views_8x1": {
107
+ "shape": [8,1],
108
+ "views": [
109
+ "lh-lateral", "lh-medial", "merg-dorsal", "merg-ventral",
110
+ "merg-rostral", "merg-caudal", "rh-medial","rh-lateral"
111
+ ],
112
+ "description": "Standard 8 views for both hemispheres in a single column"
113
+ },
114
+ "8_views_1x8": {
115
+ "shape": [1,8],
116
+ "views": [
117
+ "lh-lateral", "lh-medial", "merg-dorsal", "merg-ventral",
118
+ "merg-rostral", "merg-caudal", "rh-medial","rh-lateral"
119
+ ],
120
+ "description": "Standard 8 views for both hemispheres in a single row"
121
+ },
122
+ "6_views": {
123
+ "shape": [2,3],
124
+ "views": [
125
+ "lh-lateral", "merg-dorsal", "rh-lateral",
126
+ "lh-medial", "merg-ventral", "rh-medial"
127
+ ],
128
+ "description": "Standard 6 views for both hemispheres"
129
+ },
130
+ "6_views_6x1": {
131
+ "shape": [6,1],
132
+ "views": [
133
+ "lh-lateral", "lh-medial", "merg-dorsal",
134
+ "merg-ventral", "rh-medial","rh-lateral"
135
+ ],
136
+ "description": "Standard 6 views for both hemispheres in a single column"
137
+ },
138
+ "6_views_1x6": {
139
+ "shape": [1,6],
140
+ "views": [
141
+ "lh-lateral", "lh-medial", "merg-dorsal",
142
+ "merg-ventral", "rh-medial","rh-lateral"
143
+ ],
144
+ "description": "Standard 6 views for both hemispheres in a single row"
145
+ },
146
+ "4_views": {
147
+ "shape": [2,2],
148
+ "views": [
149
+ "lh-lateral", "rh-lateral",
150
+ "lh-medial", "rh-medial"
151
+ ],
152
+ "description": "Standard 4 views for both hemispheres"
153
+ },
154
+ "4_views_4x1": {
155
+ "shape": [4,1],
156
+ "views": [
157
+ "lh-lateral", "lh-medial", "rh-medial","rh-lateral"
158
+ ],
159
+ "description": "Standard 4 views for both hemispheres in a single column"
160
+ },
161
+ "4_views_1x4": {
162
+ "shape": [1,4],
163
+ "views": [
164
+ "lh-lateral", "lh-medial", "rh-medial","rh-lateral"
165
+ ],
166
+ "description": "Standard 4 views for both hemispheres in a single row"
167
+ },
168
+ "2_views": {
169
+ "shape": [1,2],
170
+ "views": [
171
+ "lh-lateral", "lh-medial"
172
+ ],
173
+ "description": "Standard 2 views for both hemispheres"
174
+ }
175
+ },
176
+ "themes_conf":{
177
+ "dark": {
178
+ "background_color": "black",
179
+ "title_font_color": "white",
180
+ "colorbar_font_color": "white",
181
+ "title_font_type": "arial",
182
+ "title_font_size": 10,
183
+ "title_shadow": true,
184
+ "colorbar_outline": false,
185
+ "mesh_ambient": 0.2,
186
+ "mesh_diffuse": 0.5,
187
+ "mesh_specular": 0.5,
188
+ "description": "Dark background with white text (default)"
189
+ },
190
+
191
+ "light": {
192
+ "background_color": "white",
193
+ "title_font_color": "black",
194
+ "colorbar_font_color": "black",
195
+ "title_font_type": "arial",
196
+ "title_font_size": 10,
197
+ "title_shadow": false,
198
+ "colorbar_outline": false,
199
+ "mesh_ambient": 0.3,
200
+ "mesh_diffuse": 0.7,
201
+ "mesh_specular": 0.3,
202
+ "description": "Light background with dark text"
203
+ },
204
+
205
+ "high_contrast": {
206
+ "background_color": "black",
207
+ "title_font_color": "white",
208
+ "colorbar_font_color": "white",
209
+ "title_font_type": "arial",
210
+ "title_font_size": 12,
211
+ "title_shadow": true,
212
+ "colorbar_outline": false,
213
+ "colorbar_font_size": 11,
214
+ "colorbar_title_font_size": 16,
215
+ "mesh_ambient": 0.1,
216
+ "mesh_diffuse": 0.8,
217
+ "mesh_specular": 0.6,
218
+ "description": "Maximum contrast for presentations"
219
+ },
220
+
221
+ "minimal": {
222
+ "background_color": "#f8f9fa",
223
+ "title_font_color": "#343a40",
224
+ "colorbar_font_color": "#343a40",
225
+ "title_font_type": "arial",
226
+ "title_font_size": 9,
227
+ "title_shadow": false,
228
+ "colorbar_outline": false,
229
+ "colorbar_font_size": 9,
230
+ "mesh_ambient": 0.4,
231
+ "mesh_diffuse": 0.6,
232
+ "mesh_specular": 0.2,
233
+ "description": "Clean, minimal styling"
234
+ },
235
+
236
+ "publication": {
237
+ "background_color": "white",
238
+ "title_font_color": "black",
239
+ "colorbar_font_color": "black",
240
+ "title_font_type": "times",
241
+ "title_font_size": 11,
242
+ "title_shadow": false,
243
+ "colorbar_outline": false,
244
+ "colorbar_font_type": "times",
245
+ "colorbar_font_size": 10,
246
+ "colorbar_title_font_size": 12,
247
+ "mesh_ambient": 0.2,
248
+ "mesh_diffuse": 0.6,
249
+ "mesh_specular": 0.4,
250
+ "description": "Optimized for academic publications"
251
+ },
252
+
253
+ "colorful": {
254
+ "background_color": "#1a1a2e",
255
+ "title_font_color": "#eee",
256
+ "colorbar_font_color": "#eee",
257
+ "title_font_type": "arial",
258
+ "title_font_size": 11,
259
+ "title_shadow": true,
260
+ "colorbar_outline": false,
261
+ "mesh_ambient": 0.3,
262
+ "mesh_diffuse": 0.7,
263
+ "mesh_specular": 0.5,
264
+ "mesh_specular_power": 60,
265
+ "description": "Vibrant colors for engaging visuals"
266
+ }
267
+ }
268
+ }
clabtoolkit/connectivitytools.py ADDED
File without changes