CONP Portal | Dataset


Long-term, Phantom Quality Assurance data for functional Magnetic Resonance Imaging from 13 3T research scanners
Creators: Ontario Brain Institute
Contact: Brain-CODE Team, spred@braincode.ca
Licenses: Refer to Brain-CODE Governance Policy
Version: 1.0
Modalities: MRI QA Summary Results
Formats: DICOM CSV
Size: 103.0 GB
No of Files: 2685440
No of Subjects: 13
Project Landing Page: https://www.braincode.ca/
Metadata file: DATS.json
Acknowledges: Ontario Brain Institute, Canadian Biomarker Integration Network in Depression, Ontario Neurodegeneration Disease Research Initiative, Government of Ontario
Spatial Coverage: Canada
Other Dates: Start Date: 2014-05-05 -- End Date: 2018-07-10
Description:
fBIRN phantoms scanned monthly for as a QA measure to monitor between- and within-site stability in a Siemens Prisma MRI scanner participating studies of OBI's ONDRI and CAN-BIND programs.

Dataset README information

README.md

Long-term, Phantom Quality Assurance data for functional Magnetic Resonance Imaging from 13 3T research scanners

Overview

Function Biomedical Informatics Research Network (fBIRN) phantoms were scanned at monthly intervals for four years as a quality assurance (QA) measure to monitor between- and within-site stability in 13 magnetic resonance imaging (MRI) scanners participating in the multisite, longitudinal studies of the Ontario Brain Institute’s (OBI) Ontario Neurodegeneration Disease Research Initiative (ONDRI) and Canadian Biomarker Integration Network in Depression (CAN-BIND) programs.
Acquisitions were performed using the resting state functional MRI (rs-fMRI) sequence of the Canadian Dementia Imaging Protocol (CDIP; www.cdip-pcid.ca).

This open data release includes DICOM images from 629 resting state functional MRI (rs-fMRI) scans acquired from five General Electric, two Philips, and six Siemens 3T scanners (mean number of scans per scanner = 48.5), as well as QA summary results for each scan as derived from the fBIRN pipeline.

Access

The dataset could be requested via authorized access on https://www.braincode.ca/. To request data set on Brain-CODE, sign-up by clicking “Register”.
Registered portal users have access to interactive dashboards for data exploration and data download.

Download Using DataLad

CircleCI status

The following instructions require a basic understanding of UNIX/LINUX command lines. A subset of open datasets on the Portal are also available through a browser-based download button. The instructions below regard dataset download with the use of DataLad. To install DataLad on your system, please refer to the install section of the DataLad Handbook .

Note: For maximum compatibility with conp-dataset, the CONP recommends versions 3.12+ of Python, 10.20241202+ of git-annex, and 1.1.4+ of datalad.

1) Initiate the CONP dataset

Run the following command in the directory where you want the CONP dataset (conp-dataset) to be installed:

2) Install the braincode_fBIRN dataset

To install the braincode_fBIRN dataset, run the following commands to move into the "projects" subdirectory under the "conp-dataset" directory (created in the previous step) and run datalad install:

3) Download data from the braincode_fBIRN dataset

Now that the dataset has been installed, go into the braincode_fBIRN dataset directory.

The files visible after installing the dataset but before downloading (in the next step) are symbolic links and need to be downloaded manually using the datalad get command:

If you run datalad get * command, all the files available in the dataset directory will be downloaded.


For more information on how DataLad works, please visit the DataLad Handbook documentation.