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Title

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1		-Widget 3D Head
	1	+Widget 3D

Author

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1		-XWiki.reginafilange
	1	+XWiki.ldomide

Content

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1		-Source code: [[https:~~/~~/github.com/the-virtual-brain/tvb-widgets>>https://github.com/the-virtual-brain/tvb-widgets]]
2		-
3		-This is part of a Pypi release: [[https:~~/~~/pypi.org/project/tvb-widgets/>>https://pypi.org/project/tvb-widgets/]]
4		-
5		-//**tvb-widgets**// is also already installed in the official image released for EBRAINS lab, where you can test it directly.
6		-
7		-== Purpose ==
8		-
9		-It is a Jupyter widget intended for visualization of the 3D Head data available for a patient:
10		-
11		-* surfaces of different types (cortex, face, skull, etc)
12		-* connectivity region centers and edges
13		-* sensors locations (SEEG, MEG, EEG)
14		-
15		-On cortical surfaces, it can also display region parcellation.
16		-
17		-== Inputs ==
18		-
19		-It supports the above data in the form of their corresponding TVB datatypes:
20		-
21		-* Surface (CorticalSurface, FaceSurface, etc)
22		-* Parcellation (RegionMapping)
23		-* Connectivity
24		-* Sensors (SensorsInternal, SensorsMEG, SensorsEEG)
25		-
26		-== Installation ==
27		-
28		-(% class="box" %)
29		-(((
30		-pip install tvb-widgets
31		-)))
32		-
33		-== API usage ==
34		-
35		-We need to first import the widget __API from tvbwidgets__// //package, together with the __TVB API __and the __display__ function:
36		-
37		-{{code language="python" layout="LINENUMBERS"}}
38		-import tvbwidgets.api as api
39		-from tvb.simulator.lab import *
40		-from IPython.core.display_functions import display
41		-{{/code}}
42		-
43		-Then, there are 2 options to work with the widget:
44		-
45		-1. Use a file browser to load the data and automatically display it
46		-1. Use directly the API to load the data and display it
47		-
48		-For the first option, you have to run the following 2 lines of code in a notebook cell and then just use the UI controls:
49		-
50		-{{code language="python" layout="LINENUMBERS"}}
51		-widget = api.HeadBrowser()
52		-display(widget)
53		-{{/code}}
54		-
55		-
56		-For the second option, the API is described below:
57		-
58		-In a cell, we load the data using the TVB API:
59		-
60		-{{code language="python" layout="LINENUMBERS"}}
61		-surface = surfaces.Surface.from_file()
62		-surface.configure()
63		-
64		-face = surfaces.Surface.from_file('face_8614.zip')
65		-face.configure()
66		-
67		-reg_map = region_mapping.RegionMapping.from_file()
68		-
69		-conn = connectivity.Connectivity.from_file()
70		-conn.configure()
71		-
72		-seeg = sensors.SensorsInternal.from_file()
73		-seeg.configure()
74		-{{/code}}
75		-
76		-Then we prepare the **HeadWidget** for display:
77		-
78		-{{code language="python" layout="LINENUMBERS"}}
79		-widget = api.HeadWidget([face, conn, seeg])
80		-display(widget)
81		-{{/code}}
82		-
83		-
84		-Next, we can continue adding other datatypes to this widget, by calling //**add_datatype**// multiple times.
85		-
86		-In the code below, we add the **CorticalSurface** with a **RegionMapping** as parcellation**:**
87		-
88		-{{code language="python" layout="LINENUMBERS"}}
89		-widget.add_datatype(surface, reg_map)
90		-{{/code}}
91		-
	1	+TODO
	2	+! pip install -i tvb-widgets
	3	+from tvbwidgets.api import SurfaceWidget
	4	+from IPython.core.display_functions import display
	5	+w3d = SurfaceWidget(...)
	6	+display(w3d)
	7	+
92	92	{{html}}
93		-<iframe width="840" height="480" src="https://www.youtube.com/embed/aDC2TJm2NxM" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" allowfullscreen></iframe>
	9	+<iframe src=" https://drive.google.com/file/d/1PXsxLqydNDDORIK85cQaEgGt9QdWLcC7/preview" width="640" height="480" allow="autoplay"></iframe>
94	94	{{/html}}

head.png

Author

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1		-XWiki.reginafilange

Size

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1		-245.6 KB

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