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Add instructions for connection to NTE
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jsiegle committed Nov 2, 2023
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18 changes: 16 additions & 2 deletions source/User-Manual/Plugins/Probe-Viewer.rst
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Expand Up @@ -83,13 +83,28 @@ After that, the anatomical information in the Probe Viewer should update every t

See `this tutorial <https://virtualbrainlab.org/pinpoint/tutorial.html#api>`__ for alternative instructions on how to send anatomical information from Pinpoint to Open Ephys.

Via Neuropixels Trajectory Explorer
------------------------------------

`Neuropixels Trajectory Explorer <https://github.com/petersaj/neuropixels_trajectory_explorer/wiki>`__ insertion-planning software that can be run from within MATLAB or as a standalone application.

.. image:: ../../_static/images/plugins/probeviewer/probeviewer-05.png
:alt: Connecting NTE to recording software

From the "Connect" menu, select "Recording" then "OpenEphys".

The Probe Viewer has a :ref:`neuropixelspxi` plugin upstream, the anatomical overlay should update every time the probe in moved in Neuropixels Trajectory explorer.

See `this tutorial <https://github.com/petersaj/neuropixels_trajectory_explorer/wiki/Recording-software-interfacing>`__ for additional information on how to send anatomical information from Neuropixels Trajectory Explorer to Open Ephys.



Via config messages
--------------------

The Probe Viewer accepts config messages in the following format:

.. code-block::
.. code-block::
<probe_name>;<start1>-<end1>,<region_ID_1>,<hex_color_1>;<start2>-<end2>,...
Expand All @@ -111,4 +126,3 @@ Note that the start and end indices refer to *electrodes*, not *channels*. The P

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