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Added the HED INCF application for endorsement
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| [codespell] | ||
| skip = datasets,.git,*.pdf,*.svg,deprecated,*.xml,*.mediawiki,*.omn,datasets | ||
| ignore-words-list = covert,hed,recuse |
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| # HED INCF Standard Application | ||
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| The following application was submitted to [**International Neuroinformatics Coordinating Facility (INCF)**](https://incf.or) | ||
| The following application was submitted to [**International Neuroinformatics Coordinating Facility (INCF)**](https://incf.org) | ||
| for consideration as an INCF standard. The application was reviewed, and the INCF has now called for community comments. | ||
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@@ -41,17 +41,17 @@ All HED resources are open and freely available, as summarized in Table 1 below. | |
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| ***Table 1:** HED resources and their locations.* | ||
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| | Resource | URLs | | ||
| | :---- |:-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------| | ||
| | Specification | [doi.org/10.5281/zenodo.7869149](http://doi.org/10.5281/zenodo.7869149) (DOI)<br/>[hed-specification.readthedocs.io/en/latest/](https://hed-specification.readthedocs.io/en/latest/) (HTML)<br/>[github.com/hed-standard/hed-specification/docs](http://github.com/hed-standard/hed-specification/docs) (src) | | ||
| | Homepage | [www.hedtags.org](http://www.hedtags.org) (home)<br/>[github.com/hed-standard/hed-standard.github.io](http://github.com/hed-standard/hed-standard.github.io) (src) | | ||
| | HED schemas (vocabularies) | [www.hedtags.org/display\_hed.html](http://www.hedtags.org/display\_hed.html) (viewer)<br/>[doi.org/10.5281/zenodo.7876037](http://doi.org/10.5281/zenodo.7876037) (standard schema DOI)<br/>[doi.org/10.5281/zenodo.7897596](http://doi.org/10.5281/zenodo.7897596) (score schema DOI) | | ||
| | Resource | URLs | | ||
| | :---- |:------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------| | ||
| | Specification | [doi.org/10.5281/zenodo.7869149](http://doi.org/10.5281/zenodo.7869149) (DOI)<br/>[hed-specification.readthedocs.io/en/latest/](https://hed-specification.readthedocs.io/en/latest/) (HTML)<br/>[github.com/hed-standard/hed-specification/tree/master/docs](https://github.com/hed-standard/hed-specification/tree/master/docs) (src) | | ||
| | Homepage | [www.hedtags.org](http://www.hedtags.org) (home)<br/>[github.com/hed-standard/hed-standard.github.io](https://github.com/hed-standard/hed-standard.github.io) (src) | | ||
| | HED schemas (vocabularies) | [www.hedtags.org/display\_hed.html](http://www.hedtags.org/display\_hed.html) (viewer)<br/>[doi.org/10.5281/zenodo.7876037](http://doi.org/10.5281/zenodo.7876037) (standard schema DOI)<br/>[doi.org/10.5281/zenodo.7897596](http://doi.org/10.5281/zenodo.7897596) (score schema DOI) | | ||
| | Python codebase | [doi.org/10.5281/zenodo.8056010](http://doi.org/10.5281/zenodo.8056010) (DOI)<br/>[hed-python.readthedocs.io/en/latest](http://hed-python.readthedocs.io/en/latest) (API docs HTML)<br/>[github.com/hed-standard/hed-python](http://github.com/hed-standard/hed-python) (src)<br/>[https://pypi.org/project/hedtools/](https://pypi.org/project/hedtools/) (PyPI) | | ||
| | JavaScript codebase | [doi.org/10.5281/zenodo.8172804](http://doi.org/10.5281/zenodo.8172804) (DOI)<br/>[github.com/hed-standard/hed-validator](http://github.com/hed-standard/hed-validator) (src)<br/>[www.npmjs.com/package/hed-validator](http://www.npmjs.com/package/hed-validator) (npm) | | ||
| | Documentation | [www.hed-resources.org](http://www.hed-resources.org) (HTML)<br/>[github.com/hed-standard/hed-examples/docs](https://github.com/hed-standard/hed-examples/docs) (src) | | ||
| | Example datasets | [github.com/hed-standard/hed-examples/datasets](http://github.com/hed-standard/hed-examples/datasets) (src) | | ||
| | Youtube channel | [www.youtube.com/playlist?list=PLeII6cRFsP6L5S6icwRrJp0DHkhOHtbp-](http://www.youtube.com/playlist?list=PLeII6cRFsP6L5S6icwRrJp0DHkhOHtbp-) | | ||
| | Online tools | [hedtools.org](http://hedtools.org) (online tools)<br/>[github.com/hed-standard/hed-web](http://github.com/hed-standard/hed-web) (src) | | ||
| | JavaScript codebase | [doi.org/10.5281/zenodo.8172804](http://doi.org/10.5281/zenodo.8172804) (DOI)<br/>[github.com/hed-standard/hed-javascript](https://github.com/hed-standard/hed-javascript) (src)<br/>[www.npmjs.com/package/hed-validator](http://www.npmjs.com/package/hed-validator) (npm) | | ||
| | Documentation | [www.hed-resources.org](http://www.hed-resources.org) (HTML)<br/>[https://github.com/hed-standard/hed-examples/tree/main/docs](https://github.com/hed-standard/hed-examples/tree/main/docs) (src) | | ||
| | Example datasets | [github.com/hed-standard/hed-examples/tree/main/datasets](https://github.com/hed-standard/hed-examples/tree/main/datasets) (src) | | ||
| | Youtube channel | [www.youtube.com/playlist?list=PLeII6cRFsP6L5S6icwRrJp0DHkhOHtbp-](https://www.youtube.com/playlist?list=PLeII6cRFsP6L5S6icwRrJp0DHkhOHtbp-) | | ||
| | Online tools | [hedtools.org](http://hedtools.org) (online tools)<br/>[github.com/hed-standard/hed-web](https://github.com/hed-standard/hed-web) (src) | | ||
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| ## Open | ||
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@@ -165,7 +165,8 @@ be considered instead of the given tag in an annotation. These links reflect HED | |
| purpose as a front-end annotation technology for supporting searching and summary. | ||
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| An RDF/OWL representation of the HED schemas and infrastructure is being developed using namespace | ||
| [https://purl.org/hed](https://purl.org/hed). However, this representation is not directly relevant to HED’s main purpose, | ||
| [https://purl.org/hed/hed.owl](https://purl.org/hed/hed.owl). | ||
| However, this representation is not directly relevant to HED’s main purpose, | ||
| which is as an annotation mechanism for events and other experimental metadata. | ||
| Rather, the goal of this development is to allow the association of external information that | ||
| is accessible to downstream tools. The HED Working Group plans to eventually apply to the | ||
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@@ -234,12 +235,13 @@ through the command line interface provided by the HED remodeling tools without | |
| Users create JSON files listing the commands that they wish to execute and then run the remodeling tools on a dataset. | ||
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| No programming is required to call the remodeling tools from the command line. | ||
| See the [File remodeling quickstart](https://www.hed-resources.org/en/latest/FileRemodelingQuickstart.html) tutorial and the [File remodeling tools](https://www.hed-resources.org/en/latest/FileRemodelingTools.html) user manual | ||
| See the [HED remodeling quickstart](https://www.hed-resources.org/en/latest/HedRemodelingQuickstart.html) tutorial and the [HED remodeling tools](https://www.hed-resources.org/en/latest/HedRemodelingTools.html) user manual | ||
| for additional information. | ||
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| Users can also access the functionality of the online tools through HED web services. | ||
| See [HED services in MATLAB](https://www.hed-resources.org/en/latest/HedMatlabTools.html\#hed-services-in-matlab) for examples of how these services can be called from MATLAB. | ||
| Example code for all of the services can be found in the [hed-examples](https://github.com/hed-standard/hed-examples/tree/main/hedcode/matlab\_scripts/web\_services) GitHub repository. | ||
| Example code for all services can be found in the [web_services-demos](https://github.com/hed-standard/hed-matlab/tree/main/hedmat/web_services_demos) | ||
| directory of the [hed-examples](https://github.com/hed-standard/hed-examples) GitHub repository. | ||
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| **c. Schema development:** The [HED schema developer’s guide](https://www.hed-resources.org/en/latest/HedSchemaDevelopersGuide.html) describes HED’s | ||
| open process for adding a vocabulary to the HED ecosystem. While this process requires | ||
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| For additional details see the HED governance document. | ||
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| **2. Is the governing model document for maintenance and updates compatible with the [INCF project governing model document](https://space.incf.org/index.php/s/Ypig2tfHOU4no8C\#pdfviewer) | ||
| **2. Is the governing model document for maintenance and updates compatible with the INCF project governing model document | ||
| and the open standards principles?** Yes. | ||
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| **3. Is the SBP actively supported by the community? If so, what is the evidence?** | ||
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@@ -344,13 +346,13 @@ Yes. HED is actively supported by a community of users/developers as evidenced | |
| Yes. HED users are encouraged to post questions, suggestions, and discussion on the appropriate | ||
| GitHub issues forum on the GitHub [hed-standard](https://github.com/hed-standard) organization site as indicated in the following table: | ||
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| | Issue/ suggestion type | Issue forum | Comments | | ||
| | :---- | :---- |:------------------------------------------------------------------------------------------| | ||
| | Main issue forum | [hed-schemas](https://github.com/hed-standard/hed-schemas/issues) | Primary forum for schema development.<br/>Any issue can be posted and will be redirected. | | ||
| | Docs/examples | [hed-examples](https://github.com/hed-standard/hed-examples/issues) | Documentation corrections.<br/>Questions on examples.<br/>Help on annotation. | | ||
| | Issue/ suggestion type | Issue forum | Comments | | ||
| | :---- |:------------------------------------------------------------------------------|:------------------------------------------------------------------------------------------| | ||
| | Main issue forum | [hed-schemas](https://github.com/hed-standard/hed-schemas/issues) | Primary forum for schema development.<br/>Any issue can be posted and will be redirected. | | ||
| | Docs/examples | [hed-examples](https://github.com/hed-standard/hed-examples/issues) | Documentation corrections.<br/>Questions on examples.<br/>Help on annotation. | | ||
| | Specification | [hed-specification](https://github.com/hed-standard/hed-specification/issues) | Clarification/suggestions on the<br/>specification document and JSON tests. | | ||
| | Python codebase | [hed-python](https://github.com/hed-standard/hed-python/issues) | Bug reports and feature requests. | | ||
| | JavaScript codebase | [hed-validator](https://github.com/hed-standard/hed-validator/issues) | Bug reports and feature requests. | | ||
| | Python codebase | [hed-python](https://github.com/hed-standard/hed-python/issues) | Bug reports and feature requests. | | ||
| | JavaScript codebase | [hed-javascript](https://github.com/hed-standard/hed-javascript/issues) | Bug reports and feature requests. | | ||
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| Users who wish to communicate privately about an issue, can email [[email protected]](mailto:[email protected]). | ||
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| During the next 9 years HED was developed and promoted as part of a multi-institution project | ||
| sponsored by the Army Research Laboratory to instrument the brain and body at work. | ||
| An important component of this project was to develop a standards-based publicly available repository | ||
| for the data collected in this project ([cancta.net](http://cancta.net)). A working-group organized within | ||
| for the data collected in this project ([cancta.net](https://cancta.net)). A working-group organized within | ||
| this multi-institutional project developed **second-generation HED** and assisted in the annotation of the CANCTA data corpus. | ||
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| The effort to incorporate HED into BIDS (Brain Imaging Data Structure) began in 2017 with the initiation of | ||
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| Tal Pal Attia, Kay Robbins, Harald Aurelien, Sándor Beniczky, Jorge Bosch, Arnaud Delorme, Brian Lundstrom, | ||
| * Christine Rogers, Stefan Rampp, Pedro Valdes-Sosa, Dung Truong, Greg Worrell, Scott Makeig, Dora Hermes | ||
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| [https://www.biorxiv.org/](https://www.biorxiv.org/) | ||
| [https://arxiv.org/abs/2310.15173](https://arxiv.org/abs/2310.15173) | ||
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| * **HED as a FAIR system:** | ||
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