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IntracorticalSpellingALS
DOI
10.12751/g-node.jdwmjd
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scripts_for_figures
Jonas Zimmermann 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
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helpers 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
README.md 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
basics.py 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
environment.yml 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
plot_figures_part_A.py 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
plot_figures_part_B.py 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren
plot_figures_part_C.py 27f81fbfcb gin commit from L-1010036236 vor 2 Jahren

README.md

title: "KIAP Paper figure scripts" author:

- Jonas B. Zimmermann

date: 18 April 2020

KIAP Paper figure scripts

Purpose

This repository contains Python scripts to reproduce the figures published in the KIAP paper.

Prerequisites

  1. A copy of the KIAP BCI dataset. By default, these data should be in a folder ../data relative to this file. The location can be changed in basics.py.
  2. The output folder (by default ../out) has to exist and be writable.
  3. Install conda (e.g. https://docs.conda.io/en/latest/miniconda.html)
  4. Open a terminal and navigate to the folder containing this file.
  5. Create a conda environment: conda env create -f=environment.yml
  6. Activate the new environment: conda activate kiap_paper
  7. Run ipython

  8. From within IPython, run the figure producing scripts:

    run plot_figures_part_A.py run plot_figure_3A.py run plot_figure_4.py

    • plot_figures_part_A.py contains functions to produce figures 2, 3B, and S2.
    • plot_figures_part_B.py contains functions to produce figure 3A.
    • plot_figures_part_C.py contains functions to produce figure 4.

The figures will be saved to the output directory, as eps, pdf, and svg files.

datacite.yml
Title Spelling Interface using Introcortical Signals in a Completely Locked-In Patient enabled via Auditory Neurofeedback Training
Authors Chaudhary,Ujwal;Wyss Center for Bio and Neuroengineering; Institute of Medical Psychology and Behavioral Neurobiology, University of Tübingen, Germany;ORCID:0000-0002-7887-1012
Vlachos,Ioannis;Wyss Center for Bio and Neuroengineering;ORCID:0000-0002-3319-1486
Zimmermann,Jonas B;Wyss Center for Bio and Neuroengineering;ORCID:0000-0001-9225-2595
Espinosa,Arnau;Wyss Center for Bio and Neuroengineering;ORCID:0000-0002-3268-0907
Tonin,Alessandro;Wyss Center for Bio and Neuroengineering; Institute of Medical Psychology and Behavioral Neurobiology, University of Tübingen, Germany
Jaramillo-Gonzalez,Andres;Institute of Medical Psychology and Behavioral Neurobiology, University of Tübingen, Germany
Khalili-Ardali,Majid;Institute of Medical Psychology and Behavioral Neurobiology, University of Tübingen, Germany;ORCID:0000-0001-9154-6970
Topka,Helge;Department of Neurology, Clinical Neurophysiology, Cognitive Neurology and Stroke Unit München Klinik Bogenhausen, Munich, Germany
Lehmberg,Jens;Department of Neurosurgery, München Klinik Bogenhausen, Munich, Germany;ORCID:0000-0002-8502-3134
Friehs,Gerhard M;Neurosurgery Department, European University, Nicosia, Cyprus
Woodtli,Alain;Wyss Center for Bio and Neuroengineering
Donoghue,John P;Carney Brain Institute, Brown University, Providence, USA;ORCID:0000-0002-9394-6940
Birbaumer,Niels;Institute of Medical Psychology and Behavioral Neurobiology, University of Tübingen, Germany;ORCID:0000-0002-6786-5127
Description This dataset contains intracranial data (threshold crossings converted to multi-unit spike rate estimates) as well as behavioral data (events from the BCI software) recorded from one participant in a clinical case over a year.
License Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (https://creativecommons.org/licenses/by-nc-sa/4.0/)
References Ujwal Chaudhary, Ioannis Vlachos, Jonas B Zimmermann, Arnau Espinosa, Alessandro Tonin, Andres Jaramillo-Gonzalez, Majid Khalili-Ardali, Helge Topka, Jens Lehmberg, Gerhard M Friehs, Alain Woodtli, John P Donoghue, Niels Birbaumer: Verbal Communication using Intracortical Signals in a Completely Locked In-Patient. medRxiv 2020.06.10.20122408 [doi:10.1101/2020.06.10.20122408] (IsSupplementTo)
Funding Wyss Center for Bio and Neuroengineering
Keywords Neuroscience
Human
Intracortical Array
Utah Array
Spikes
BCI
ALS
Resource Type Dataset