studyforrest.org: Phase2 data (movie, eyetracking, retmapping, visual localizers) [BIDS]
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An Extension of studyforrest.org Dataset
****************************************
|license| |access| |doi|
Simultaneous fMRI/eyetracking while movie watching, plus visual localizers
==========================================================================
This is an extension of the studyforrest project, all participants previously
volunteered for the audio-only Forrest Gump study. The datset is structured in
BIDS format, details of the files and metadata can be found at:
Ayan Sengupta, Falko R. Kaule, J. Swaroop Guntupalli, Michael B. Hoffmann,
Christian Häusler, Jörg Stadler, Michael Hanke. `An extension of the
studyforrest dataset for vision research
<http://biorxiv.org/content/early/2016/03/31/046573>`_. (submitted for
publication)
Michael Hanke, Nico Adelhöfer, Daniel Kottke, Vittorio Iacovella,
Ayan Sengupta, Falko R. Kaule, Roland Nigbur, Alexander Q. Waite,
Florian J. Baumgartner & Jörg Stadler. `Simultaneous fMRI and eye gaze
recordings during prolonged natural stimulation – a studyforrest extension
<http://biorxiv.org/content/early/2016/03/31/046581>`_. (submitted for
publication)
For more information about the project visit: http://studyforrest.org
How to obtain the dataset
-------------------------
The dataset is available for download from `OpenFMRI (accession number
ds000113d) <https://www.openfmri.org/dataset/ds000113d>`_.
Alternatively, the `studyforrest phase 2 repository on GitHub
<https://github.com/psychoinformatics-de/studyforrest-data-phase2>`_ provides
access as a DataLad dataset.
DataLad datasets and how to use them
------------------------------------
This repository is a `DataLad <https://www.datalad.org/>`__ dataset. It provides
fine-grained data access down to the level of individual files, and allows for
tracking future updates up to the level of single files. In order to use
this repository for data retrieval, `DataLad <https://www.datalad.org>`_ is
required. It is a free and open source command line tool, available for all
major operating systems, and builds up on Git and `git-annex
<https://git-annex.branchable.com>`__ to allow sharing, synchronizing, and
version controlling collections of large files. You can find information on
how to install DataLad at `handbook.datalad.org/en/latest/intro/installation.html
<http://handbook.datalad.org/en/latest/intro/installation.html>`_.
Get the dataset
^^^^^^^^^^^^^^^
A DataLad dataset can be ``cloned`` by running::
datalad clone <url>
Once a dataset is cloned, it is a light-weight directory on your local machine.
At this point, it contains only small metadata and information on the
identity of the files in the dataset, but not actual *content* of the
(sometimes large) data files.
Retrieve dataset content
^^^^^^^^^^^^^^^^^^^^^^^^
After cloning a dataset, you can retrieve file contents by running::
datalad get <path/to/directory/or/file>
This command will trigger a download of the files, directories, or
subdatasets you have specified.
DataLad datasets can contain other datasets, so called *subdatasets*. If you
clone the top-level dataset, subdatasets do not yet contain metadata and
information on the identity of files, but appear to be empty directories. In
order to retrieve file availability metadata in subdatasets, run::
datalad get -n <path/to/subdataset>
Afterwards, you can browse the retrieved metadata to find out about
subdataset contents, and retrieve individual files with ``datalad get``. If you
use ``datalad get <path/to/subdataset>``, all contents of the subdataset will
be downloaded at once.
Stay up-to-date
^^^^^^^^^^^^^^^
DataLad datasets can be updated. The command ``datalad update`` will *fetch*
updates and store them on a different branch (by default
``remotes/origin/master``). Running::
datalad update --merge
will *pull* available updates and integrate them in one go.
More information
^^^^^^^^^^^^^^^^
More information on DataLad and how to use it can be found in the DataLad Handbook at
`handbook.datalad.org <http://handbook.datalad.org/en/latest/index.html>`_. The
chapter "DataLad datasets" can help you to familiarize yourself with the
concept of a dataset.
.. _Git: http://www.git-scm.com
.. _git-annex: http://git-annex.branchable.com/
.. |license|
image:: https://img.shields.io/badge/license-PDDL-blue.svg
:target: http://opendatacommons.org/licenses/pddl/summary
:alt: PDDL-licensed
.. |access|
image:: https://img.shields.io/badge/data_access-unrestricted-green.svg
:alt: No registration or authentication required
.. |doi|
image:: https://zenodo.org/badge/14167/psychoinformatics-de/studyforrest-data-phase2.svg
:target: https://zenodo.org/badge/latestdoi/14167/psychoinformatics-de/studyforrest-data-phase2
:alt: DOI