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Neuroimaging Data Model (NIDM): describing neuroimaging data and provenance
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data-sharing incf neuroimaging ontology

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NeuroImaging Data Model (NIDM)

A model to represent neuroimaging data with their metadata in support of data sharing and reuse!

NIDM is currently made up of:

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NIDM is defined as an extension the W3C PROV standard for provenance.

NIDM-Results

Documentation

The NIDM-Results specification is available at: http://nidm.nidash.org/specs/nidm-results.html

Citation

Camille Maumet, Tibor Auer, Alexander Bowring, Gang Chen, Samir Das, Guillaume Flandin, Satrajit Ghosh, Tristan Glatard, Krzysztof J. Gorgolewski, Karl G. Helmer, Mark Jenkinson, David B. Keator, B. Nolan Nichols, Jean-Baptiste Poline, Richard Reynolds, Vanessa Sochat, Jessica Turner & Thomas E. Nichols. Sharing brain mapping statistical results with the neuroimaging data model. Scientific Data, Nature Publishing Group, 2016, 3. doi: 10.1038/sdata.2016.102

Tools

Getting Started

Interested in using NIDM-Results? See the get started with NIDM page where you will find how to publish your fMRI results from SPM and FSL & upload to NeuroVault.

Contributing

Thanks for you interest in contributing to NIDM-Results! If you would like to submit an update or outline an issue with the NIDM-Results specification, please submit an issue or email us. You can also join our weekly calls!

NIDM-Experiment

Documentation

The W3C-formatted work-in-progress version of the NIDM-Experiment specification, containing only NIDM namespace terms, is available here.

The entire NIDM-Experiment specification terminology is available here. Terms from other ontologies and terminologies (BIDS, DICOM, SIO, OBO, ONLI) used in NIDM-Experiment can also be found here by clicking on the buttons at the top of the page. These pages are interconnected, for example, if a nidm: namespace term entry uses a term from SIO, the SIO term will be a link that will refer to the SIO entry that provides the term label and definition. These pages can be used as a source of URI's, useful when annotating data using PyNIDM or other software. For example, the entry for the term is here [nidm:ImageDataReconstruction] http://nidm.nidash.org/specs/nidm_html/index.html#imagedatareconstruction).

We have created terminologies from the BIDS and DICOM standards and included them in NIDM-Experiment. This means that all terms used in the BIDS specification and each DICOM tag now has a URI that can be used for data annotation. Note however that BIDS and DICOM terms do not have formal definitions in their respective standards, but the description provided by those standards is provided here in each term entry.

Tools

Contributing

Thanks for you interest in contributing to NIDM-Experiment! Please feel free to submit an issue or email us. You can also join our weekly calls!

NIDM weekly calls

We meet to discuss the development of NIDM-Experiment by videoconference, once a month on a Friday at 8-9am PDT / 11am-12pm EDT / 4-5pm BST. The group is always open to new contributors interested in neuroimaging data sharing. To join the call or to ask any question, please email us at incf-nidash-nidm@googlegroups.com.

NIDM-Workflows

Documentation

The work-in-progress NIDM-Workflows specification is available here.

Tools

Contributing

Thanks for you interest in contributing to NIDM-Workflows! Contributions to NIDM-Workflows are gathered on the work-in-progress NIDM-Worklows specification. Please feel free to commment directly on this document, submit an issue or email us. You can also join our weekly calls!

Other resources

Acknowledgements

The NIDM working group is a collaboration supported by the INCF.