Widget TimeSeries

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Source code: [[https:~~/~~/github.com/the-virtual-brain/tvb-widgets>>url:https://github.com/the-virtual-brain/tvb-widgets]]

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This is part of a Pypi release: [[https:~~/~~/pypi.org/project/tvb-widgets/>>url:https://pypi.org/project/tvb-widgets/]]

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//**tvb-widgets**// is also already installed in the official image released for EBRAINS lab, where you can test it directly.

== Purpose ==

It is a JupyterLab Widget intended for the visualization of brain signals represented as time series.

== Backends ==

Starting with //**tvb-widgets 1.5.0**, //the TS widget comes in 2 forms, corresponding to the 2 different libraries (we called them backends) used for plotting: **matplotlib **and **plotly**. The matplotlib backend, build on top of the **mne** library, offers more advanced scientifical features, while the plotly backend has a more appealing look and moves faster when talking about the basic interactions.

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Below you can see the TS widget with each backend option (first one using the matplotlib backend, second one using the plotly backend).

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[[image:matplotlib.png]]

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[[image:plotly.png]]

== Inputs ==

Time series can be given as inputs in two forms:

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* TVB TimeSeries datatype

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* Numpy arrays

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This widget supports 2D, 3D, and 4D arrays. In all three cases, there is a fixed shape that the TimeSeries widget expects:

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* for **2D**: (no_timepoints, no_channels)

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* for **3D**: (no_timepoints, state_variable/mode, no_channels)

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* for **4D**: (no_timepoints, state_variable, no_channels, mode)

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~* Note that the TVB TimeSeries datatype is always 4D and already has the expected shape.

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== Requirements and installation ==

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Before installing the tvb-widgets library containing the TimeSeries widget, the following python libraries and Jupyter extensions should be installed:

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* **Libraries:**

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** [[mne>>https://mne.tools/stable/index.html]] >= 1.0

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** [[matplotlib>>https://matplotlib.org/3.5.0/index.html]]

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** [[plotly>>https://plotly.com/python/]] == 5.14.0

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** [[ipywidgets>>https://ipywidgets.readthedocs.io/en/7.x/]] == 7.7.2

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** [[ipympl>>https://github.com/matplotlib/ipympl#installation]] >= 0.8.5

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**Extensions:**

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jupyter labextension install @jupyter-widgets/jupyterlab-manager

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jupyter labextension install jupyter-matplotlib

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jupyter labextension install jupyterlab-plotly

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Then, to install the tvb-widgets library, just type:

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pip install tvb-widgets

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== API usage ==

First, the correct matplotlib backend must be set, which enables the interaction with the TimeSeries widget, by running the following command:

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%matplotlib widget

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Then, simply import the **plot_timeseries** method, which gives you access to the TS widget:

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from tvbwidgets.api import plot_timeseries

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Assuming that the user has already created or imported a valid input, this is how the widget can be initialized and displayed (example below assumes that **tsr **is a TVB TimeSeries datatype):

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backend = 'plotly' # change to 'matplotlib' to see the other TS widget

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plot_timeseries(data=tsr, backend=backend)

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After running the code from above into a Jupyter cell, you should see the TS widget corresponding to the backend you selected.

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== 1. TS Widget with matplotlib and mne ==

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As it was already mentioned, the matplotlib widget offers more advanced scientifical fearures. In the video below, you can see some of the functionalities that this backend provides, like: increasing/decreasing signal amplitude, selecting/deselecting certain signals, selecting different dimensions (state variable/mode) from the input data, navigating through the timeline, etc.

== 2. TS Widget with plotly ==

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Starting with //**tvb-widgets version 1.5.0**//, we introduced a second TS Widget, which uses the **plotly.py** library to create the interactive plot. Below you can watch small tutorials on how to use and interact with this widget.

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=== 2.1. Moving through the timeline and channels list ===

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To move through the timeline or channels list, go to your cursor over the X (for timeline) and Y (for channels) axes and drag it to navigate.

=== 2.2. Modify spacing between channels ===

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{{html}}<iframe width="840" height="480" src="https://www.youtube.com/embed/q_olB7uRSc4" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" allowfullscreen></iframe>{{/html}}

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== 2. TS Widget with plotly ==

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Starting with //**tvb-widgets version 1.5.0**//, we introduced a second TS Widget, which uses the **plotly.py** library to create the interactive plot. Below you can watch small tutorials on how to use and interact with this widget.

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=== 2.1. Moving through the timeline and channels list ===

== 2. TS Widget with plotly ==

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Starting with //**tvb-widgets version 1.5.0**//, we introduced a second TS Widget, which uses the **plotly.py** library to create the interactive plot. Below you can watch small tutorials on how to use and interact with this widget.

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=== 2.1. Moving through the timeline and channels list ===

Wiki source code of Widget TimeSeries

TVB Widgets