README.md

PhysIO Code | Examples | Test Data | Paper

Example Repository for TAPAS PhysIO Toolbox

All example data for the TAPAS PhysIO Toolbox is in this repository.

Download

You can download the examples by cloning this repository as

git clone https://github.com/ComputationalPsychiatry/PhysIO-Examples.git

Alternatively, you can use tapas_physio_download_example_data in the PhysIO Code Repository to download the examples within Matlab into a subfolder examples of PhysIO.

Please note: This repository only contains example data for trying out the toolbox. If you are a developer, you will also have to download the Test Data to execute unit tests etc.

Overview

The general folder structure is

<vendor>/<modality>/

where:

• <vendor> could be a scanner vendor (Siemens, Philips, GE...) or a manufacturer of peripheral devices (BioPac, ADInstruments), as well as a data standard (BIDS)

• <modality> describes the scan modality (3 Tesla, 7 Tesla) as well as the recording modality (PPU, ECG) combined, e.g., PPU-3T

• Within each of these folders, you will find:

  • the raw physiological logfiles
  • example scripts to run PhysIO in 3 formats:
    • SPM job (*spm_job.mat)
    • editable SPM job (*spm_job.m)
    • plain matlab script (*matlab_script.m)

• Each example shall be run directly from within its individual folders.

  • The relative paths have been automatically updated, based on the template jobs in the examples subfolder of the PhysIO code repository

• A description of the individual examples (vendor, origin, etc.) is found on this PhysIO Wiki Page - Examples