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Add DOI badge and update reference
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ethanbb authored Jan 24, 2019
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# Phase Calculator Plugin
# Phase Calculator Plugin [![DOI](https://zenodo.org/badge/134900173.svg)](https://zenodo.org/badge/latestdoi/134900173)

A plugin for the [Open Ephys GUI](https://github.com/open-ephys/plugin-GUI) to estimate the phase of inputs within a specified passband in real time. Its primary purpose is to enable closed-loop stimulation, typically in combination with the [Crossing Detector](https://github.com/tne-lab/crossing-detector) and either the Pulse Pal or an external stimulation system that receives ZeroMQ events (for example, the LabVIEW implementation [here](https://github.com/tne-lab/closed-loop-stim)). It can also output the magnitude or imaginary component of the band-limited analytic signal instead of the phase. (The "PH+MAG" mode outputs both phase and magnitude, in separate channels.) Finally, the visualization tab or window can receive TTL events and display the delayed but precise phase of a specified input at the event onset samples in a rose plot. This allows real-time monitoring of stimulation accuracy.

The closed-loop system incorporating this plugin is described in the following article, which should be cited in future publications:
The following article describes the algorithm used by the previous version of this plugin and the closed-loop stimulation pipeline as a whole:

Blackwood, E., Lo, M., Widge, A. S. (2018). Continuous phase estimation for phase-locked neural stimulation using an autoregressive model for signal prediction. 40th International Conference of the IEEE Engineering in Medicine and Biology Society, in press.
Blackwood, E., Lo, M., Widge, A. S. (2018). Continuous phase estimation for phase-locked neural stimulation using an autoregressive model for signal prediction. 40th International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), Honolulu, HI, 4736-4739.

If you are just using the plugin in your project, you can cite this version of the code using the DOI listed in the header of this file.

<img src="ht_pc.png" width="200" /><img src="ht_pc_menu1.png" width="200"/><img src="ht_pc_menu2.png" width="200"/>
<img src="PC_vis.png" width="350" />
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