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211	211	=== Step by Step - Models ===
212	212
213	213
214		-
215		-
216		-==== 1. Start early ====
217		-
218		-It is not necessary to wait until you are ready to publish to register your model with EBRAINS.
219		-
220		-By registering a model early in your project, you can take advantage of EBRAINS tools
221		-to keep track of simulations and to share them with your collaborators.
222		-
223		-==== 2. Create/choose a Collab workspace ====
224		-
225		-We use EBRAINS Collaboratory "collab" workspaces to help manage the model curation process.
226		-
227		-In particular, we use collab membership (the "Team") to control who can view or edit your model metadata prior to publication.
228		-
229		-It is up to you whether you create a new collab for each model, or reuse an existing collab
230		-(it is no problem to have multiple models associated with a single collab).
231		-
232		-Collabs are also useful for storing simulation results, adding documentation for your model,
233		-and/or providing tutorials in Jupyter notebooks.
234		-
235		-
236		-
237		-
238	238	~1. Request curation using the [[Curation request form>>https://nettskjema.no/a/277393#/]]. You will be contacted by a curator with more information.
239	239
240	240
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268	268
269	269	== **The openMINDS metadata framework** ==
270	270
271		-(% class="box floatinginfobox" %)
272		-(((
273		-[[[[image:https://github.com/HumanBrainProject/openMINDS/raw/main/img/light_openMINDS-logo.png||alt="openMINDS logo" height="87" width="164"]]>>https://github.com/HumanBrainProject/openMINDS]]
274		-)))
275		-
276	276	openMINDS (open Metadata Initiative for Neuroscience Data Structures) is a community-driven, open-source metadata framework for graph database systems, such as the EBRAINS Knowledge Graph. It is composed of linked metadata models, libraries of serviceable metadata instances, and supportive tooling ([[openMINDS Python>>url:https://pypi.org/project/openMINDS/]], openMINDS Matlab). For exploring the openMINDS schemas, go to the [[HTML documentation>>url:https://humanbrainproject.github.io/openMINDS/]]. For a full overview of the framework, go to [[the openMINDS collab>>url:https://wiki.ebrains.eu/bin/view/Collabs/openminds/]] or the [[GitHub repository>>https://github.com/HumanBrainProject/openMINDS]].
277	277
278	278	For feedback, requests, or contributions, please get in touch with the openMINDS development team via
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377	377
378	378	=== **Showcase shared data, models or software in other services** ===
379	379
380		-Below is a list of additional services that data, models or software shared via EBRAINS can benefit from. EBRAINS is continuously looking to increase the number of interoperable services.
	351	+Below is a list of additional services that data, models or software shared via EBRAINS can benefit from. EBRAINS is continuously looking to increase the number of interoperable services.
381	381
	353	+**Viewer for 2D images **
382	382
383		-|(% colspan="2" %)**Viewer for 2D images**
384		-|[[image:MIO_screenshot.PNG]]|Integrate image data with //the Mio viewer//: EBRAINS Multi-Image OpenSeadragon viewer provides an intuitive way of navigating high-resolution 2D image series. It has browser-based classic pan and zoom capabilities. A collection can be displayed as a filmstrip (Filmstrip Mode) or as a table (Collection Mode) with adjustable number of row and columns. See [[Mio viewer links available for this dataset>>https://search.kg.ebrains.eu/?category=Dataset&q=nr2f1#9677359c-73fa-4425-b8fa-3de794e9017a]] as an example. MioViewer user manual is found [[here>>https://multi-image-osd.readthedocs.io/en/latest/index.html]].
385		-|(% colspan="2" %)**Viewer for sequential atlas-registered 2D images with annotation options**
386		-|[[image:LZ_screenshot.PNG]]|Integrate atlas-registered 2D image data with //the LocaliZoom viewer//: The EBRAINS LocaliZoom serial section viewer displays series of registered 2D section images with atlas overlay, allowing the users to zoom into high-resolution images and have information about the brain regions. See the [[LocaliZoom links available for this dataset>>https://doi.org/10.25493/T686-7BX]] as an example. LocaliZoom user manual is found [[here>>https://localizoom.readthedocs.io/en/latest/index.html]].
387		-|(% colspan="2" %)**Interactive 3D atlas viewer with options for data visualization**
388		-|[[image:3Datlas_screenshot.PNG]]|Upload your data to the //Siibra-explorer//: The siibra-explorer is used for visualizing volumetric brain data in all the brain atlases provided by EBRAINS (Human, Monkey, Rat and Mouse). The siibra-explorer viewer uses siibra-api to enable navigation of brain region hierarchies, maps in different coordinate spaces, and linked regional data features. Furthermore, it is connected with the siibra toolsuite providing several analytical workflows. To learn more about how to register your data to atlases, read about the [[Atlas services on ebrains.eu>>https://ebrains.eu/services/atlases#Integratedatatoanatlas]].
389		-|(% colspan="2" %)**Use your research product in an interactive publication**
390		-|[[image:LivePaper_screenshot.PNG]]|Add your data, models or software to a// Live paper. //Read more about [[Live papers on ebrains.eu>>https://www.ebrains.eu/data/live-papers/live-papers]].
	355	+* Integrate image data with //the Mio viewer//: EBRAINS Multi-Image OpenSeadragon viewer provides an intuitive way of navigating high-resolution 2D image series. It has browser-based classic pan and zoom capabilities. A collection can be displayed as a filmstrip (Filmstrip Mode) or as a table (Collection Mode) with adjustable number of row and columns. See [[Mio viewer links available for this dataset>>https://search.kg.ebrains.eu/?category=Dataset&q=nr2f1#9677359c-73fa-4425-b8fa-3de794e9017a]] as an example. MioViewer user manual is found [[here>>https://multi-image-osd.readthedocs.io/en/latest/index.html]].
391	391
	357	+**Viewer for sequential atlas-registered 2D images with annotation options**
	358	+
	359	+* Integrate atlas-registered 2D image data with //the LocaliZoom viewer//: The EBRAINS LocaliZoom serial section viewer displays series of registered 2D section images with atlas overlay, allowing the users to zoom into high-resolution images and have information about the brain regions. See the [[LocaliZoom links available for this dataset>>https://doi.org/10.25493/T686-7BX]] as an example. LocaliZoom user manual is found [[here>>https://localizoom.readthedocs.io/en/latest/index.html]].
	360	+
	361	+**Use your research product in an interactive publication **
	362	+
	363	+* Add your data, models or software to a// Live paper. //Read more about [[Live papers on ebrains.eu>>https://www.ebrains.eu/data/live-papers/live-papers]].
	364	+
	365	+**Interactive 3D atlas viewer with options for data visualization**
	366	+
	367	+* Upload your data to //the Siibra//-explorer: The siibra-explorer is used for visualizing volumetric brain data in all the brain atlases provided by EBRAINS (Human, Monkey, Rat and Mouse). The siibra-explorer viewer uses siibra-api to enable navigation of brain region hierarchies, maps in different coordinate spaces, and linked regional data features. Furthermore, it is connected with the siibra toolsuite providing several analytical workflows. To learn more about how to register your data to atlases, read about the [[Atlas services on ebrains.eu>>https://ebrains.eu/services/atlases#Integratedatatoanatlas]].
	368	+
392	392	----
393	393
394	394	==== **Add a tutorial or learning resource ** ====
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434	434
435	435	>Can my data be too insignificant to share?
436	436
	414	+
437	437	No, there is no such thing as insignificant data. Data that is considered insignificant for a given topic, may have great significance for another. By making “insignificant” data publicly available, other researchers may find something interesting that was off-topic for your own purposes.
438	438
439	439	>Can my data be easily misused if I share it?
440	440
	419	+
441	441	No, your data will be covered by a Creative Commons license of your choice. There are a variety of licenses available, enabling you to prevent use for specific purposes, e.g. commercial use.
442	442
443	443	>Can I share my data before my paper is published?
444	444
	424	+
445	445	Yes, if you do not want to share your data before publishing the results in an article, you can publish your dataset with an embargo status. This will make it possible to find information about the data without making the data itself available, and give you a citeable DOI.
446	446
447	447	>Can I lose my competitive edge if I share my data before I publish the associated paper?
448	448
	429	+
449	449	No, publishing your data does not mean that others can use it however they want. Use of your data will require citation, and by choosing an appropriate Creative Commons licence you decide what others are allowed to do with it. If you still feel worried, you can publish your data under embargo, and in this way delay the date of data release, but still make it possible for others to find the information about the data.
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