Wiki source code of Widget Connectivity
Version 3.1 by davidbacter01 on 2023/09/19 10:22
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| author | version | line-number | content |
|---|---|---|---|
| 1 | == Widget Connectivity == | ||
| 2 | |||
| 3 | Source code: [[https:~~/~~/github.com/the-virtual-brain/tvb-widgets>>url:https://github.com/the-virtual-brain/tvb-widgets]] | ||
| 4 | |||
| 5 | This is part of a Pypi release: [[https:~~/~~/pypi.org/project/tvb-widgets/>>url:https://pypi.org/project/tvb-widgets/]] | ||
| 6 | |||
| 7 | //**tvb-widgets**// is also already installed in the official image released for EBRAINS lab, where you can test it directly. | ||
| 8 | |||
| 9 | |||
| 10 | == Purpose == | ||
| 11 | |||
| 12 | Jupyter lab widget for visualizing or do operations on a connectivity | ||
| 13 | |||
| 14 | |||
| 15 | === Visualization: === | ||
| 16 | |||
| 17 | - in 2D can visualize weights or tracts matrixes; | ||
| 18 | |||
| 19 | [[image:image-20230919110833-1.png]] | ||
| 20 | |||
| 21 | - in 3D can visualize regions and their respective edges | ||
| 22 | |||
| 23 | |||
| 24 | ==== [[image:image-20230919110853-2.png]] ==== | ||
| 25 | |||
| 26 | |||
| 27 | === Operations: === | ||
| 28 | |||
| 29 | - remove selected nodes from a connectivity, results in a new connectivity containing only the nodes that were not selected; | ||
| 30 | |||
| 31 | - remove unselected nodes from a connectivity, results in a new connectivity containing only the selected nodes; | ||
| 32 | |||
| 33 | - remove unselected edges, results in a new connectivity with the same number of regions but without the edges of unselected regions; | ||
| 34 | |||
| 35 | - remove selected edges, results in a new connectivity with the same number of regions but without the edges of selected regions. | ||
| 36 | |||
| 37 | |||
| 38 | === Usage: === | ||
| 39 | |||
| 40 | After instantiating the widget it allows export of the currently selected connectivity: | ||
| 41 | |||
| 42 | {{code language="python"}} | ||
| 43 | from tvbwidgets.api import ConnectivityWidget | ||
| 44 | from tvb.datatypes.connectivity import Connectivity | ||
| 45 | |||
| 46 | import pyvista as pv | ||
| 47 | |||
| 48 | |||
| 49 | pv.set_jupyter_backend('pythreejs') | ||
| 50 | |||
| 51 | conn = Connectivity.from_file() # defaults to connectivy_76.zip | ||
| 52 | conn.configure() | ||
| 53 | |||
| 54 | wid = ConnectivityWidget(conn, default_active_tab='viewers') # default_active_tab can be any value between 'viewers'|'operations'|'both' | ||
| 55 | |||
| 56 | display(wid) | ||
| 57 | # ....do some operations... | ||
| 58 | # replace None in the method below with the gid of the connectivity you wish to export | ||
| 59 | # if no gid is provided it will export the connectivity currently viewed | ||
| 60 | |||
| 61 | new_connectivity = wid.get_connectivity(gid=None) | ||
| 62 | new_connectivity | ||
| 63 | {{/code}} | ||
| 64 | |||
| 65 |