Changes for page Data Curation
Last modified by abonard on 2025/06/03 10:55
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... ... @@ -1,25 +1,6 @@ 1 -{{html clean="false"}} 2 -<div style="float:right;margin-left:1em;margin-bottom:1em"> 3 - <form title="Search in this collab" target="_blank" action="https://wiki.ebrains.eu/bin/view/Main/Search"> 4 - <input type="hidden" name="sort" value="score"> 5 - <input type="hidden" name="sortOrder" value="desc"> 6 - <input type="hidden" name="highlight" value="true"> 7 - <input type="hidden" name="facet" value="true"> 8 - <input type="hidden" name="r" value="1"> 9 - <input type="hidden" name="f_locale" value="en"> 10 - <input type="hidden" name="f_space_facet" value="1/Collabs.test-ir2."> 11 - <input type="hidden" name="l_space_facet" value="100"> 12 - <input type="hidden" name="f_type" value="DOCUMENT"> 13 - <input type="text" name="text" placeholder="Search here..." size="25" id="searchbox" /> 14 - <input type="submit" value="🔎︎" id="submit"/> 15 - </form> 16 -</div> 17 -{{/html}} 1 +== Publishing neuroscience data, models and software via EBRAINS == 18 18 19 19 20 -(% class="wikigeneratedid" id="HPublishingneurosciencedata2CmodelsandsoftwareviaEBRAINS" %) 21 -(% style="font-size:2em" %)**Publishing neuroscience data, models and software via EBRAINS** 22 - 23 23 (% class="wikigeneratedid" %) 24 24 The aim of this collab is to provide you with detailed information about publishing data, simulations, computational models, and software via EBRAINS. If you want a quick overview of the sharing process, see [[https:~~/~~/ebrains.eu/service/share-data>>https://ebrains.eu/service/share-data]]. 25 25 ... ... @@ -27,6 +27,7 @@ 27 27 {{toc depth="3" start="2"/}} 28 28 {{/box}} 29 29 11 + 30 30 == **Information to get started** == 31 31 32 32 **[[REQUEST CURATION>>https://nettskjema.no/a/277393#/]] to share data, simulations, computational models, and software, - or to add a new version of an existing one. ** ... ... @@ -34,10 +34,8 @@ 34 34 Have you already published your data somewhere else? You can increase the exposure and impact of your shared dataset by also listing it on EBRAINS. 35 35 36 36 37 -(% class="box" style="text-align: center; font-size: 1.2em" %) 38 -((( 39 -Search existing data, models and software in the [[EBRAINS Knowledge Graph>>https://kg.ebrains.eu/search/?facet_type[0]=Dataset]] 40 -))) 19 +(% style="text-align: center;" %) 20 +Search existing data, models and software in [[the EBRAINS Knowledge Graph Search>>https://kg.ebrains.eu/search/?facet_type[0]=Dataset]] 41 41 42 42 43 43 EBRAINS accepts data from all modalities and from all species, as well as models, software, web services and metadata models (collectively referred to as research products) for sharing. You'll find detailed information about how to share each research product below. ... ... @@ -67,9 +67,7 @@ 67 67 68 68 The curation of data, models and software is different. Thus, below we explain the process for sharing for each research product separately. 69 69 70 -**Before you get started, make sure you[[ sign up for a free EBRAINS account>>https://www.ebrains.eu/page/sign-up]]. This is needed to complete the data sharing process. ** 71 71 72 - 73 73 ---- 74 74 75 75 === Step by step - Data === ... ... @@ -77,27 +77,18 @@ 77 77 78 78 [[image:image-20230326054341-1.png]] 79 79 80 -(% class="box floatinginfobox" id="share-data-infographic" %) 81 -((( 82 -(% style="text-align:center" %) 83 -//Download our infographic// 84 -//with all you need to know// 85 -//to share data on EBRAINS: // 86 -// // 87 -[[[[image:image-20230324171114-2.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]] 88 -))) 58 +==== [[[[image:image-20230324171114-2.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]//All you need to know to share data on EBRAINS.// ==== 89 89 90 90 91 91 ==== **1. Provide some general information about your dataset** ==== 92 92 93 93 64 +[[image:https://lh3.googleusercontent.com/zh7TvO6w04YGW9jIhfhmdT6CexdGs-AWOLfJXKRq7-tdHOu6ar1rOQx8o4rZevrjXqgPZ7-Ejv4b6X9XpgXuHpdUXi-mBTHIUnv5Vz-DktHt0sP-PZ3gE8XgZid3TV3swV1uTCBhHx11ge0pjP7RVxswGQ=s2048||height="85px;" width="91px;"]]** Fill in the [[Curation request form>>https://nettskjema.no/a/277393#/]]. ** 94 94 95 -(% style="margin-right:10px" %)[[image:https://lh3.googleusercontent.com/zh7TvO6w04YGW9jIhfhmdT6CexdGs-AWOLfJXKRq7-tdHOu6ar1rOQx8o4rZevrjXqgPZ7-Ejv4b6X9XpgXuHpdUXi-mBTHIUnv5Vz-DktHt0sP-PZ3gE8XgZid3TV3swV1uTCBhHx11ge0pjP7RVxswGQ=s2048||height="85px;" width="91px;"]](%%)** Fill in the [[Curation request form>>https://nettskjema.no/a/277393#/]]. ** 96 - 97 97 This form collects preliminary information about your data, allowing us to assess whether the dataset fits within the scope of EBRAINS. The submission generates a curation ID allowing us to track the case. 98 98 99 99 100 - (% style="margin-right:10px" %)[[image:https://lh6.googleusercontent.com/yw442oS6BwZOlY-_0BoVxyCW3DrdcJ5ogCes92iOD16_rgNEVk56aNMDaVWXFfBLYv24bHzmGgBF9wg0szjH70xzuRTqxoQAeuy3knNO7axCHoyZDXwtyTcMgFnYwbOYxOT29LK-zchrUKLW6Mle93kOkQ=s2048||height="94px;" width="94px;"]](%%)**Fill in the [[Ethics and Regulatory compliance form>>https://nettskjema.no/a/224765]]**.69 +[[image:https://lh6.googleusercontent.com/yw442oS6BwZOlY-_0BoVxyCW3DrdcJ5ogCes92iOD16_rgNEVk56aNMDaVWXFfBLYv24bHzmGgBF9wg0szjH70xzuRTqxoQAeuy3knNO7axCHoyZDXwtyTcMgFnYwbOYxOT29LK-zchrUKLW6Mle93kOkQ=s2048||height="94px;" width="94px;"]]**Fill in the [[Ethics and Regulatory compliance form>>https://nettskjema.no/a/224765]]**. 101 101 102 102 This form collects the necessary information needed for us to evaluate whether we can ethically and legally share the data via EBRAINS. 103 103 ... ... @@ -106,41 +106,31 @@ 106 106 107 107 ==== **2. Upload data ** ==== 108 108 109 -(% class="box floatinginfobox" id="share-data-infographic" %) 110 -((( 111 -(% style="text-align:center" %) 112 -//Download our infographic// 113 -//with guidelines 114 -on data organization: // 115 115 116 -(% style="text-align:center" %) 117 -[[[[image:image-20230621121014-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/lib/f5cf4964-f095-49bd-8c34-e4ffda05a497/file/ebrains-infographic-data-organisation.pdf/]] 118 -))) 79 +[[image:https://lh5.googleusercontent.com/sieKO-kW8O18iPaUyonwyo4UfHBmtc2E9BDnjbx52j6J_uGmm-OzGAo7sloMk3sYwKa6QW3hYQsOA9N4H7uGQpca088Wrk0Nurpt_J3B0-NSbcaPNdZIh21otQcG6jnAxLGiKoEvkTyaDGTMk3fu7me8mQ=s2048||height="94px;" width="94px;"]]**Ensure data is structured consistently prior to upload. ** 119 119 120 - (%style="margin-right:10px"%)[[image:https://lh5.googleusercontent.com/sieKO-kW8O18iPaUyonwyo4UfHBmtc2E9BDnjbx52j6J_uGmm-OzGAo7sloMk3sYwKa6QW3hYQsOA9N4H7uGQpca088Wrk0Nurpt_J3B0-NSbcaPNdZIh21otQcG6jnAxLGiKoEvkTyaDGTMk3fu7me8mQ=s2048||height="94px;"width="94px;"]](%%)**Ensure data isstructured consistentlyprior to upload.**81 +We look for organized data, not organized according to our standard. This is to support the broadest degree of sharing possible. We do however require that the data is organized in a consistent and precise manner. Please see our// //[[collection of guidelines on data organization>>https://drive.ebrains.eu/smart-link/25299f04-c4e5-4028-8f5f-3b8208f9a532/]] for further guidance. 121 121 122 - Wek forrganized data,notrganizedaccordingto our standard.Thisis to support thebroadestdegree ofsharingossible.We do however requirethatthedataisorganizedina consistentandprecise manner.Please seeour// //[[guidelinesondataorganization>>https://drive.ebrains.eu/smart-link/25299f04-c4e5-4028-8f5f-3b8208f9a532/]] forfurtherguidance.83 +[[image:https://lh5.googleusercontent.com/EWtYwfVlbeC-jqPasgmzidqc50GrkKIEgwXeUeql8aaMHIukmFdWEy0nufVWWATbxDDK3XwwZEDmASrbpCsBk1u0HpAd8x4ZgAMsMPRcWyrb9etlV6FgKE_QN2e6SqKxHE0rzkR8uI1rRW_5z21TFGYVnw=s2048||height="91px;" width="91px;"]]**Upload data to EBRAINS Storage, either using a drag-and-drop solution (opt. 1) or an interactive python script (opt. 2).** 123 123 124 - (%style="margin-right:10px"%)[[image:https://lh5.googleusercontent.com/EWtYwfVlbeC-jqPasgmzidqc50GrkKIEgwXeUeql8aaMHIukmFdWEy0nufVWWATbxDDK3XwwZEDmASrbpCsBk1u0HpAd8x4ZgAMsMPRcWyrb9etlV6FgKE_QN2e6SqKxHE0rzkR8uI1rRW_5z21TFGYVnw=s2048||height="91px;"width="91px;"]](%%)**Uploaddata toEBRAINS Storage, eitherusingadrag-and-dropsolution(opt.1) oraninteractive python script(opt.2).**85 +//Opt. 1. //For smaller datasets with a reasonable amount of files, we recommend using the Collab-Bucket solution (drag-and-drop). A Collab Bucket must first be assigned to a dataset, which happens when a datasets is accepted for sharing. 125 125 126 - **Opt.1.**Forsmaller datasets with a reasonableamount of files, we recommend using theCollab-Bucket solution (drag-and-drop). A Collab Bucketmustfirstbessignedtoadataset,whichhappenswhen adatasetsisacceptedforsharing.87 +//Opt. 2. //For larger datasets or datasets with a large amount of files, we recommend using a programmatic approach. The [[python script>>https://github.com/eapapp/ebrains-data-storage/tree/main/data-proxy]] is interactive and does not require any additional programming. 127 127 128 -**Opt. 2. **For larger datasets or datasets with a large amount of files, we recommend using a programmatic approach. The [[python script>>https://github.com/eapapp/ebrains-data-storage/tree/main/data-proxy]] is interactive and does not require any additional programming. 129 129 130 - 131 131 EBRAINS offers secure, long-term storage at [[CSCS Swiss National Supercomputing Centre>>url:https://www.cscs.ch/]], with currently no upper limit of storage capacity. 132 132 133 133 If a data collection is already uploaded elsewhere, we may link to the already existing repository. 134 134 135 135 136 -= ===**3. Submit metadata**====95 +(% style="color:#1a202c; font-family:inherit; font-size:23px" %)**3. Submit metadata** 137 137 138 138 139 - (% style="margin-right:10px" %)[[image:https://lh5.googleusercontent.com/WS4T2LhF9znWWChn3Z550agLrrb-KTWdYVsJSv0lh4cGjKbjuN1WV68WER9xkYqi1UqN7KYZz7bImYz3_TpOuTuvma7T192QUiUZoyJVPk1fj5NSDSQh_kpIeBufAOdDtsDRpPKK_P5EDPqRCTAaOTNyCw=s2048||height="91px;" width="91px;"]](%%)**Submit metadata using the **[[EBRAINSMetadataWizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]** (opt. 1), or directlyvia the Knowledge Graph (opt. 2) **98 +[[image:https://lh5.googleusercontent.com/WS4T2LhF9znWWChn3Z550agLrrb-KTWdYVsJSv0lh4cGjKbjuN1WV68WER9xkYqi1UqN7KYZz7bImYz3_TpOuTuvma7T192QUiUZoyJVPk1fj5NSDSQh_kpIeBufAOdDtsDRpPKK_P5EDPqRCTAaOTNyCw=s2048||height="91px;" width="91px;"]]**Submit metadata using the **[[EBRAINS Wizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]** (opt. 1), or through direct interaction with the Knowledge Graph (opt. 2) ** 140 140 141 - **Opt. 1.**Manually submit the minimal required metadata via the [[EBRAINSMetadataWizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]. The minimal required metadata covers extended bibliographic information necessary to publish your dataset on EBRAINS. The submitted information, including uploaded files, will be sent to the Curation team automatically100 +//Opt. 1.// Manually submit the minimal required metadata via the [[EBRAINS Wizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]. The minimal required metadata covers extended bibliographic information necessary to publish your dataset on EBRAINS. The submitted information, including uploaded files, will be sent to the Curation team automatically 142 142 143 - **Opt. 2.**To go beyond the minimal required metadata, you can directly interact with the Knowledge Graph (KG) in your private space. Within the private space, you can upload metadata and interact with them, moreover you can connect your metadata to existing publicly accessible entries. Access to your private space is granted upon the initiation of the curation process. You can access your private space via:102 +//Opt. 2.// To go beyond the minimal required metadata, you can directly interact with the Knowledge Graph (KG) in your private space. Within the private space, you can upload metadata and interact with them, moreover you can connect your metadata to existing publicly accessible entries. Access to your private space is granted upon the initiation of the curation process. You can access your private space via: 144 144 145 145 * Knowledge Graph Editor: This User Interface allows you to manually enter metadata into your KG space and validate metadata that are programmatically uploaded. The Editor contains a basic set of openMINDS metadata templates, but can be extended to the full openMINDS metadata model on request. Access is granted once the request is accepted. 146 146 * [[Fairgraph>>https://fairgraph.readthedocs.io/en/stable/]]: This is the recommended software tool for programmatic interaction with the KG. It allows you to programmatically upload openMINDS compliant metadata into your KG space and interact with existing metadata. ... ... @@ -149,12 +149,10 @@ 149 149 Datasets published through the EBRAINS Knowledge Graph have to be registered using **openMINDS compliant metadata** delivered as JSON-LD files. See this summary table for an overview of [[the minimally required openMINDS properties for publishing>>https://drive.ebrains.eu/lib/47995dbc-f576-4008-a76c-eefbfd818529/file/ebrains-minimum-required-metadata.xlsx]] on EBRAINS. 150 150 151 151 152 -==== **4. Write a Data Descriptor** ==== 111 +==== **4. Write a Data Descriptor ** ==== 153 153 113 +[[image:https://lh4.googleusercontent.com/lMYEKOXzejbBydOdotWWteXQo7j363xRyntBGjcPZVEdtIU1CJYX7q1STpdr2JPZK4hpWWXk20UlkUOqDGL5kX6vnQVBSdrfUo6EGfXOwpuGq1Uygv0tTZJ0lRO6voJvg56QC2mufvjAcRXGfAKFOjtc6w=s2048||height="94px;" width="94px;"]]**Write a data descriptor by filling in **[[this template>>https://drive.ebrains.eu/f/a2e07c95b1a54090bbbc/?dl=1]]** . ** 154 154 155 - 156 -(% style="margin-right:10px" %)[[image:https://lh4.googleusercontent.com/lMYEKOXzejbBydOdotWWteXQo7j363xRyntBGjcPZVEdtIU1CJYX7q1STpdr2JPZK4hpWWXk20UlkUOqDGL5kX6vnQVBSdrfUo6EGfXOwpuGq1Uygv0tTZJ0lRO6voJvg56QC2mufvjAcRXGfAKFOjtc6w=s2048||height="94px;" width="94px;"]](%%)**Write a data descriptor by filling in **[[this template>>https://drive.ebrains.eu/f/a2e07c95b1a54090bbbc/?dl=1]]**.** 157 - 158 158 The Data Descriptor is a document helping others interpret and reuse (and prevent misuse) of your data, and is critical to achieve a basic level of FAIR. The document will be uploaded in the repository of the data, shared as a PDF. 159 159 160 160 See our infographic about the data descriptor for inspiration or guidance. ... ... @@ -163,352 +163,274 @@ 163 163 164 164 Journal publications sufficiently describing the shared data, such as made available through [[Nature Scientific Data>>http://www.nature.com/sdata/about]], [[Elsevier Data in Brief>>http://www.journals.elsevier.com/data-in-brief/]], [[BMC Data note>>https://bmcresnotes.biomedcentral.com/submission-guidelines/preparing-your-manuscript/data-note]] and more, can replace the EBRAINS Data Descriptor. 165 165 123 +==== [[[[image:image-20230324171109-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]//The EBRAINS Data descriptor at-a-glance// ==== 166 166 167 -(% class="box floatinginfobox" id="data-descriptor-infographic" %) 168 -((( 169 -(% style="text-align:center" %) 170 -//Download our infographic 171 -about the EBRAINS Data// 172 -//Descriptor// 173 -// // 174 -[[[[image:image-20230324171109-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]] 175 -))) 176 176 177 -==== **5. Preview and publish** ==== 126 +==== **5. Preview and publish ** ==== 178 178 179 179 180 - (% style="margin-right:10px" %)[[image:https://lh4.googleusercontent.com/XqT26Q4yWJK26cjtjhI4ToXoZZMxhT9LimG4Hk9mePxy0-KPKgpVIzcuiP5mOQowBgf2JjkrWUq2VbCmafWWZPJplEZALnFOlCZHLlQgzOx7fFwoBteyi_IlMLkPBS9vtOcdNIZ59HyLnQz4RsTQ0lUrSw=s2048||height="91px;" width="91px;"]](%%)**Preview and approve the release of your dataset. **129 +[[image:https://lh4.googleusercontent.com/XqT26Q4yWJK26cjtjhI4ToXoZZMxhT9LimG4Hk9mePxy0-KPKgpVIzcuiP5mOQowBgf2JjkrWUq2VbCmafWWZPJplEZALnFOlCZHLlQgzOx7fFwoBteyi_IlMLkPBS9vtOcdNIZ59HyLnQz4RsTQ0lUrSw=s2048||height="91px;" width="91px;"]]**Preview and approve the release of your dataset. **Once a Curator has assembled the dataset in the EBRAINS Knowledge Graph, combining the data, metadata and data descriptor, the data provider will receive a private URL for previewing the dataset prior to release. We need an official approval from the data custodian{{footnote}}The Data Custodian is responsible for the content and quality of the Data and metadata, and is the person to be contacted by EBRAINS CS in case of any misconduct related to the Data. It is the obligation of a Data Custodian to keep EBRAINS informed about changes in the contact information of the authors of the Datasets provided by them ([[EBRAINS Data Provision Protocol - version 1.1>>https://strapi-prod.sos-ch-dk-2.exo.io/EBRAINS_Data_Provision_Protocol_dfe0dcb104.pdf]]).{{/footnote}} to release the dataset. Once released, a [[DataCite DOI>>https://datacite.org/]] will be generated for the dataset. If the identical data collection has received a DOI elsewhere, we recommend re-using the already issued DOI. 181 181 182 -Once a Curator has assembled the dataset in the EBRAINS Knowledge Graph, combining the data, metadata and data descriptor, the data provider will receive a private URL for previewing the dataset prior to release. We need an official approval from the data custodian{{footnote}}The Data Custodian is responsible for the content and quality of the Data and metadata, and is the person to be contacted by EBRAINS CS in case of any misconduct related to the Data. It is the obligation of a Data Custodian to keep EBRAINS informed about changes in the contact information of the authors of the Datasets provided by them ([[EBRAINS Data Provision Protocol - version 1.1>>https://strapi-prod.sos-ch-dk-2.exo.io/EBRAINS_Data_Provision_Protocol_dfe0dcb104.pdf]]).{{/footnote}} to release the dataset. Once released, a [[DataCite DOI>>https://datacite.org/]] will be generated for the dataset. If the identical data collection has received a DOI elsewhere, we recommend re-using the already issued DOI. 183 183 132 +---- 184 184 134 +==== **Sharing human subject data ** ==== 185 185 136 +(% class="box floatinginfobox" %) 137 +((( 138 +**Human subject data that can be shared on EBRAINS:** 186 186 187 ----- 140 +- Post-mortem data 141 +- Aggregated data 142 +- Strongly pseudonymized or de-identified subject data with a legal basis for sharing (e.g. Informed Consent) 188 188 189 -=== Step by Step - Models === 144 +(% class="small" %)//If you have human data that does not classify as any of the above, please get in touch and we will clarify the available options. // 145 +))) 190 190 147 +Human subject data shared on EBRAINS must comply with [[GDPR >>https://gdpr-info.eu/]]and [[EU directives>>https://eur-lex.europa.eu/legal-content/EN/TXT/?uri=celex%3A32010L0063]]. The information we need to assess this is collected via our [[Ethics and Regulatory Compliance Survey>>https://nettskjema.no/a/224765]]. 191 191 192 - ====1.Start early====149 +Post-mortem and aggregated human data can be shared openly, given direct identifiers in the metadata are removed. Strongly pseudonymized and de-identified data can be shared via the Human Data Gateway (HDG). 193 193 194 - Itis not necessary towaituntilyouare readytopublish to registeryourmodelwithEBRAINS.151 +The Human Data Gateway (HDG) was introduced in February 2021 as a response to the needs of multiple data providers who are bringing human subject data to EBRAINS. HDG covers the sharing of strongly pseudonymized or de-identified data, a limited range human subject data without direct identifiers and with very few indirect identifiers. 195 195 196 -By registering a model early in your project, you can take advantage of EBRAINS tools 197 -to keep track of simulations and to share them with your collaborators. 153 +The HDG adds an an authentication layer on top of the data. This means that **data users **must request access to the data (via their EBRAINS account) and will receive access provided they actively accept the [[EBRAINS Access Policy>>https://ebrains.eu/terms#access-policy]], the [[EBRAINS General Terms of Use>>https://ebrains.eu/terms#general-terms-of-use]], and the [[EBRAINS Data Use Agreement>>https://ebrains.eu/terms#data-use-agreement]]. The account holder also have to accept that information about their request and access to specific data under HDG is being tracked and stored. **Data owners** must be aware that sharing under the HDG affects the legal responsibilities for the data. They must agree to joint control of the data (see the [[Data Provision Protocol v1>>url:https://strapi-prod.sos-ch-dk-2.exo.io/EBRAINS_Data_Provision_Protocol_dfe0dcb104.pdf]], section 1.4 - 1.5) and the Data Protection Officers of the responsible institutions must have accepted that the data can be shared under HDG. 198 198 199 - ====2.Create/choose aCollabworkspace====155 +The HDG is an extension of the existing services and does not replace the future EBRAINS Service for sensitive data (planned for 2024) which is outside the domain of the current EBRAINS Data and Knowledge services. 200 200 201 -We use EBRAINS Collaboratory "collab" workspaces to help manage the model curation process. 202 202 203 - In particular, we use collab membership (the "Team") to control who can view or edit your model metadata prior to publication.158 +---- 204 204 205 -It is up to you whether you create a new collab for each model, or reuse an existing collab 206 -(it is no problem to have multiple models associated with a single collab). 160 +=== Step by Step - Models === 207 207 208 -Collabs are also useful for storing simulation results, adding documentation for your model, 209 -and/or providing tutorials in Jupyter notebooks. 210 210 211 - ====3.Upload code====163 +~1. Request curation using the [[Curation request form>>https://nettskjema.no/a/277393#/]]. You will be contacted by a curator with more information. 212 212 213 -We recommend storing model code and/or configuration files in an online Git repository, for example on GitHub. 214 -This repository should be public when you publish the model, but a private repository can be used for model development. 215 215 216 -A lternatively,you canupload codetothe CollabDriveor Bucketstorage.166 +//Additional information will be added soon.// 217 217 218 - ==== 4.Submit metadata ====168 +---- 219 219 220 - Werecommendsubmittingmetadata using theModelCatalog app, installedin your collab.170 +=== Step by Step - Software === 221 221 222 - Tolit:172 +[[[[image:swc-flow-no-header.png||alt="swc-flow.png"]]>>https://www.ebrains.eu/tools/ebrains-curation-request-form||rel="noopener noreferrer" target="_blank"]] 223 223 224 -1. click the "+ Create" button 225 -1. in the "Create Page" form, add a title, such as "Model Catalog", and select "Community App", then click "Create" 226 -1. scroll down until you find the "Model Catalog" app, click "Select", then "Save & View" 174 +~1. Fill in the [[request form>>https://www.ebrains.eu/tools/ebrains-curation-request-form]]. You'll be contacted by a curator with further instructions. In these instructions you will find the links to your software and software version entries in the Knowledge Graph. 227 227 228 -You will then see a table of all the models and validation tests associated with this collab. 229 -If this is your first time using the app, the table will probably be empty. 230 -To add your model, click "+", fill in the form, then click "Add model". 176 +2. Enter the metadata of your software in your private space of the [[Knowledge Graph Editor>>url:https://editor.kg.ebrains.eu/]] by using the links provided by the curator. Please provide the metadata for your software as complete as possible. This makes it easier for users to find and use your software. If you have questions feel free to contact the curation support. After you have finished editing your entries, please let the curators know by replying to your ticket. We curate your metadata and get back to you, if necessary. 231 231 232 -As development of your model proceeds, you can easily register new versions of the code, 233 -and new parameterizations, by clicking "Add new version". 178 +3. After a quality check, we integrate and publish the information to the Knowledge Graph. Your software is then searchable and usable for the neuroscience community. 234 234 235 -If you prefer not to use the app, you can instead fill in the [[Curation request form>>https://nettskjema.no/a/277393#/]]., 236 -and you will be contacted by e-mail with further instructions. 180 +If you want to add a new version to an already curated software, please request this via the [[curation request form>>https://nettskjema.no/a/277393]]. 237 237 238 - ====5.Provideareference dataset====182 +For more information, visit our [[Guide to Software Curation in the EBRAINS Knowledge Graph>>url:https://wiki.ebrains.eu/bin/view/Collabs/swc-guide]] or see our infographic below. 239 239 240 -Once you're ready to publish your model entry in the EBRAINS Knowledge Graph, 241 -we encourage you to provide a dataset containing the simulation results produced by your model, 242 -following the process under "Step by step - Data" above. 184 +[[[[image:Thumb.png||alt="EBRAINS-Share-Software.pdf" height="155" style="float:left" width="106"]]>>attach:EBRAINS-Share-Software.pdf]] 243 243 244 -These reference data will be linked to the model, and will be helpful to anyone trying to 245 -reuse your model. 246 246 247 -We will soon introduce a "Reproducible" badge for all models that include a reference dataset, 248 -and whose simulation results can be reproduced by an EBRAINS curator. 249 249 250 -==== 6. Requestpublication,previewandpublish====188 +==== //Software curation at a glance// ==== 251 251 252 -Until you request your model entry to be published in the EBRAINS Knowledge Graph, 253 -only members of the collab will be able to view the model entry, in the Model Catalog app 254 -or using the Model Validation Python client. 255 255 256 -After publication, the model will appear in the [[EBRAINS public search results>>https://search.kg.ebrains.eu/?category=Model||rel="noopener noreferrer" target="_blank"]], and will receive a DOI. 257 257 258 -To request publication, [[contact EBRAINS support>>https://ebrains.eu/support||rel="noopener noreferrer" target="_blank"]], providing the collab name and the model name or ID. 259 259 193 +---- 260 260 261 - Curatorswill thenperform anumberofchecks:195 +== **The openMINDS metadata framework** == 262 262 263 -1. Does the model description provide sufficient context to understand the purpose and use of the model? 264 -1. Does the code repository contain a licence file, explaining the conditions for reusing the code? 265 -1. Does the model have a clearly defined version identifier (e.g. v1.0)? For models in a Git repository, the version identifier should match the name of a tag or release. 197 +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]]. 266 266 267 - Thecuratorswillalsotakea snapshotofyourmodelcode.199 +For feedback, requests, or contributions, please get in touch with the openMINDS development team via 268 268 269 -* For models in public Git repositories, we archive a copy of the repository in [[Software Heritage>>https://www.softwareheritage.org/||rel="noopener noreferrer" target="_blank"]]. 270 -* For models in a collab Bucket or Drive, we make a read-only copy of the code in a public container in the EBRAINS repository. 201 +* the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]] 202 +* the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]] 203 +* the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]] 271 271 272 -Once this is done, you will be invited to review a preview of how the model entry will appear in the KG Search, 273 -and will have the opportunity to request modifications prior to approval and publication. 274 - 275 275 ---- 276 276 277 -== =StepbyStep-Software===207 +== **The curation team: meet the curators** == 278 278 209 +The EBRAINS curators help researchers publish their research using the EBRAINS Research Infrastructure. A curator’s job is similar to the job of an editor of a scientific journal, checking the data is organized, understandable, accessible and sufficiently described. 279 279 280 -(% class="box floatinginfobox" id="software-curation-infographic" %) 281 -((( 282 -(% style="text-align:center" %) 283 -//Software curation at a glance// 284 -// // 285 -[[[[image:Thumb2.png||alt="EBRAINS-Share-Software.pdf" height="287" width="197"]]>>attach:EBRAINS-Share-Software-4.pdf]] 286 -))) 211 +The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 212 + 287 287 288 - (% style="margin-left:15px" %)[[[[image:Screenshot 2023-06-06 1122082.png||alt="swc-flow.png" height="136"width="637"]]>>https://www.ebrains.eu/tools/ebrains-curation-request-form||rel="noopenernoreferrer" target="_blank"]]214 +**Located in Norway:** 289 289 290 -1. Fill in the [[request form>>https://www.ebrains.eu/tools/ebrains-curation-request-form]]. You'll be contacted by a curator with further instructions. In these instructions, you will find the links to your software and software version entries in the Knowledge Graph. 291 -1. Enter the metadata of your software in your private space of the [[Knowledge Graph Editor>>url:https://editor.kg.ebrains.eu/]] by using the links provided by the curator. Please provide the metadata for your software as complete as possible. This makes it easier for users to find and use your software. If you have questions feel free to contact the curation support. After you have finished editing your entries, please let the curators know by replying to your ticket. We curate your metadata and get back to you, if necessary. 292 -1. After a quality check, we integrate and publish the information to the Knowledge Graph. Your software is then searchable and usable for the neuroscience community. 216 +|(% style="width:303px" %)((( 217 +[[image:My project2.jpg||height="209" width="167"]] 293 293 294 - If you want to add a new version toanlreadycurated software, please request this via the [[curation request form>>https://nettskjema.no/a/277393]].219 +**Archana Golla** 295 295 296 -For more information, visit our [[Guide to Software Curation in the EBRAINS Knowledge Graph>>url:https://wiki.ebrains.eu/bin/view/Collabs/swc-guide]] or see our infographic on the right. 221 +(% class="small" %)Curation Scientist 222 +Neuroscience (PhD)(%%) 223 +(% class="small" style="color:#4a5568" %)**Behavioral neuroscience and microscopy** 224 +)))|(% style="width:303px" %)((( 225 +[[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]] 297 297 227 +**Camilla H. Blixhavn** 298 298 299 ----- 229 +(% class="small" %)Curation Scientist, 230 +Phd Student 231 +Neuroscience (M. Sc.)(%%) 232 +(% class="small" style="color:#4a5568" %)**Neuroanatomy and data integration** 233 +)))|(% style="width:303px" %)((( 234 +[[image:My project (1).jpg||height="209" width="167"]] 300 300 301 - === Sharinghuman subjectdata ===236 +**Ingrid Reiten** 302 302 303 -(% class="box floatinginfobox" %) 304 -((( 305 -**Human subject data that can be shared on EBRAINS:** 306 -// // 307 -// - Post-mortem data// 308 -// - Aggregated data// 309 -// - Strongly pseudonymized or de-identified subject data// 310 -// with a legal basis for sharing (e.g. Informed Consent)// 311 -// // 238 +(% class="small" %)Curation Scientist, 239 +Phd Student 240 +Neuroscience (M. Sc.)(%%) 241 +(% class="small" style="color:#4a5568" %)**Neuroanatomy and structural connectivity** 242 +)))|(% style="width:303px" %)((( 243 +[[image:My project1.jpg||height="209" width="167"]] 312 312 313 -(% class="small" %) 314 -//If you have human data that does not qualify as any of the above,// 315 -//please [[get in touch>>https://www.ebrains.eu/contact/]] and we will clarify the available options.// 245 +**Sophia Pieschnik** 246 + 247 +(% class="small" %)Curation Scientist 248 +Neurocognitive Psychology (M. Sc.)(%%) 249 +(% class="small" style="color:#4a5568" %)**Neuroimaging ** 316 316 ))) 317 317 252 +|(% style="width:303px" %)((( 253 +[[image:My project.jpg||height="209" width="167"]] 318 318 319 -H uman subject data shared on EBRAINS must comply with [[GDPR >>https://gdpr-info.eu/]]and[[EU directives>>https://eur-lex.europa.eu/legal-content/EN/TXT/?uri=celex%3A32010L0063]]. The information we need to assess this is collectedvia our [[Ethics and Regulatory Compliance Survey>>https://nettskjema.no/a/224765]].255 +**Heidi Kleven** 320 320 321 -Post-mortem and aggregated human data can be shared openly, given direct identifiers in the metadata are removed. Strongly pseudonymized and de-identified data can be shared via the Human Data Gateway (HDG). 257 +(% class="small" %)Curation Scientist, 258 +Phd Student 259 +Neuroscience (M. Sc.)(%%) 260 +(% class="small" style="color:#4a5568" %)**Neuroanatomy and brain atlases** 261 +)))| | | 322 322 323 -The Human Data Gateway (HDG) was introduced in February 2021 as a response to the needs of multiple data providers who are bringing human subject data to EBRAINS. HDG covers the sharing of strongly pseudonymized or de-identified data, a limited range human subject data without direct identifiers and with very few indirect identifiers. 263 + 264 +\\**Located in Germany:** 324 324 325 -The HDG adds an an authentication layer on top of the data. This means that **data users **must request access to the data (via their EBRAINS account) and will receive access provided they actively accept the [[EBRAINS Access Policy>>https://ebrains.eu/terms#access-policy]], the [[EBRAINS General Terms of Use>>https://ebrains.eu/terms#general-terms-of-use]], and the [[EBRAINS Data Use Agreement>>https://ebrains.eu/terms#data-use-agreement]]. The account holder also have to accept that information about their request and access to specific data under HDG is being tracked and stored. **Data owners** must be aware that sharing under the HDG affects the legal responsibilities for the data. They must agree to joint control of the data (see the [[Data Provision Protocol v1>>url:https://strapi-prod.sos-ch-dk-2.exo.io/EBRAINS_Data_Provision_Protocol_dfe0dcb104.pdf]], section 1.4 - 1.5) and the Data Protection Officers of the responsible institutions must have accepted that the data can be shared under HDG. 266 +|(% style="width:303px" %)((( 267 +[[image:My project (2).jpg||height="209" width="167"]] 326 326 327 - The HDG isanextension of the existing services anddoes not replace the future EBRAINS Service for sensitive data (planned for 2024) which is outside the domain of the current EBRAINS Data and Knowledge services.269 +**Jan Gündling** 328 328 329 ----- 271 +(% class="small" %)Curation Scientist, 272 +Phd Student 273 +Sensors and Cognitive Psychology (M. Sc.)(%%) 274 +(% class="small" style="color:#4a5568" %)**Human-Computer Interaction** 275 +)))|(% style="width:303px" %)((( 276 + 330 330 331 -== **The openMINDS metadata framework** == 332 332 333 -(% class="box floatinginfobox" %) 334 -((( 335 -[[[[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]] 336 -))) 337 337 338 -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]]. 339 339 340 -For feedback, requests, or contributions, please get in touch with the openMINDS development team via 341 341 342 -* the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]] 343 -* the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]] 344 -* the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]] 345 345 346 ----- 347 347 348 -== **Add practical value to your shared data, model or software** == 349 349 350 350 351 -=== **Showcase shared data, models or software in other services** === 352 352 353 -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. 354 354 288 +**Lyuba Zehl** 355 355 356 -|(% colspan="2" %)**Viewer for 2D images** 357 -|[[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]]. 358 -|(% colspan="2" %)**Viewer for sequential atlas-registered 2D images with annotation options** 359 -|[[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]]. 360 -|(% colspan="2" %)**Interactive 3D atlas viewer with options for data visualization** 361 -|[[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]]. 362 -|(% colspan="2" %)**Use your research product in an interactive publication** 363 -|[[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]]. 290 +(% class="small" %)Knowledge Systems Engineer 291 +Dr. rer. nat. (Systems Neuroscience)(%%) 292 +(% class="small" style="color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis** 293 +)))|(% style="width:303px" %) | 364 364 365 365 ---- 366 366 297 +== **Add practical value to your shared data, model or software** == 298 + 299 + 367 367 ==== **Add a tutorial or learning resource ** ==== 368 368 369 369 (% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %) 370 -(% style=" --darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//303 +(% style="color:#000000" %)//More information will follow// 371 371 372 372 373 373 ==== **Create a workflow** ==== 374 374 375 375 (% class="wikigeneratedid" id="H-Workflows5Binformation5D" %) 376 -(% style=" --darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//309 +(% style="color:#000000" %)//More information will follow// 377 377 378 378 ---- 379 379 380 -== ** EBRAINScommits to theFAIRprinciples** ==313 +=== **Showcase shared data, models or software in other services** === 381 381 382 - Datasets, models andsoftwaresharedvia EBRAINS gothrougha streamlined curation processthatensures relevantnnotationof thedata usingthe [[openMINDS>>url:https://github.com/HumanBrainProject/openMINDS]] metadata frameworkand integrationinto the [[EBRAINSKnowledge Graph>>url:https://docs.kg.ebrains.eu/]] metadatamanagementsystem.Theresearchproducts are Findable and Accessiblethroughthe [[KnowledgeGraph Search>>url:https://search.kg.ebrains.eu/?category=Dataset]]asdataset/model/softwarecardsthatdisplay furtherinformationregardingthedataset's Interoperability and Reusability.315 +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. 383 383 384 - To further specify how EBRAINS aligns with theFAIR principles,wehave assessed the FAIRness of datasets sharedin the EBRAINS Knowledge Graphfollowing the [[FAIRsFAIRDataObject Assessment Metrics>>https://zenodo.org/record/6461229]]: Go to the [[FAIR Assessment of EBRAINS datasets>>doc:.FAIRassessment of EBRAINS datasets.WebHome]].317 +**Viewer for 2D images ** 385 385 319 +* 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]]. 386 386 387 -- ---321 +**Viewer for sequential atlas-registered 2D images with annotation options** 388 388 389 - ==**Generalbenefits ofsharing data**==323 +* 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]]. 390 390 391 - Bysharingyourdatavia EBRAINS, yougain accesstothefollowingbenefits:325 +**Use your research product in an interactive publication ** 392 392 393 -[[i mage:image-20230324170841-3.png]]327 +* 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]]. 394 394 329 +**Interactive 3D atlas viewer with options for data visualization** 395 395 331 +* 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]]. 396 396 397 -We support you to better follow the [[FAIR^^ ^^guiding principles>>https://www.nature.com/articles/sdata201618]] for data management and stewardship{{footnote}}Wilkinson, M., Dumontier, M., Aalbersberg, I. et al. The FAIR Guiding Principles for scientific data management and stewardship. Sci Data 3, 160018 (2016). https://doi.org/10.1038/sdata.2016.18 {{/footnote}}. Publishing data, models or code via EBRAINS will provide you with a citeable [[DataCite DOI>>https://www.doi.org/the-identifier/resources/handbook/]] for your research product. 398 - 399 399 ---- 400 400 401 -== ** Frequently askedquestions** ==335 +=== **The benefits of sharing data ** === 402 402 403 - >Isthecurationprocess timeconsumingand difficult?337 +By sharing your data via EBRAINS, you gain access to the following benefits: 404 404 405 - No,if communication is on a regular basis, weare able to finish curation within two weeks.Publishingyour data naturally takes some effort but we will support you as much as possible.339 +[[image:image-20230324170841-3.png]] 406 406 407 ->Is sharing my data also beneficial for me or only for others? 408 408 409 -When you publish your data via EBRAINS, we provide comprehensive data management support and safe long term storage - all free of charge. Additionally, your data can be cited, just like a scientific journal article. Sharing your data may even lead to new funding opportunities. Many funders specifically support projects that are part of the “Open Science” initiative. 410 410 411 - >Can mydatabe too?343 +We support you to better follow the [[FAIR^^ ^^guiding principles>>https://www.nature.com/articles/sdata201618]] for data management and stewardship{{footnote}}Wilkinson, M., Dumontier, M., Aalbersberg, I. et al. The FAIR Guiding Principles for scientific data management and stewardship. Sci Data 3, 160018 (2016). https://doi.org/10.1038/sdata.2016.18 {{/footnote}}. Publishing data, models or code via EBRAINS will provide you with a citeable [[DataCite DOI>>https://www.doi.org/the-identifier/resources/handbook/]] for your research product. 412 412 413 -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. 414 - 415 ->Can my data be easily misused if I share it? 416 - 417 -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. 418 - 419 ->Can I share my data before my paper is published? 420 - 421 -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. 422 - 423 ->Can I lose my competitive edge if I share my data before I publish the associated paper? 424 - 425 -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. 426 - 427 - 428 428 ---- 429 429 430 -== (% style="color:#1a202c;font-family:inherit;font-size:29px"%)**The curationteam: meet the curators**(%%)==347 +=== **Frequently asked questions ** === 431 431 432 -The EBRAINS curators help researchers publish their research using the EBRAINS Research Infrastructure. A curator’s job is similar to the job of an editor of a scientific journal, checking the data is organized, understandable, accessible and sufficiently described. 349 +((( 350 +==== ==== 433 433 434 -The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 435 - 352 +((( 353 +>The curation process is time consuming and difficult 354 +))) 355 +))) 436 436 437 -**Located in Norway** 357 +(% class="wikigeneratedid" id="HHowcanIshareA0models3F" %) 358 +Publishing your data naturally takes some time and effort but we will support you as much as possible. If communication is on a regular basis, we are able to finish basic curation - from the initial contact to dataset release - within two weeks. 438 438 439 -|(% style="width:303px" %)((( 440 -[[image:My project2.jpg||height="209" width="167"]] 360 +>Sharing my data is not beneficial for me - only for others 441 441 442 -**Archana Golla** 443 443 444 -(% class="small" %)Curation Scientist 445 -Neuroscience (PhD)(%%) 446 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Behavioral neuroscience and microscopy** 447 -)))|(% style="width:303px" %)((( 448 -[[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]] 363 +When you publish your data via EBRAINS, we provide comprehensive data management support and safe long term storage - all free of charge. Additionally, your data can be cited, just like a scientific journal article. Sharing your data may even lead to new funding opportunities. Many funders specifically support projects that are part of the “Open Science” initiative. 449 449 450 - **CamillaH.Blixhavn**365 +>My data is too insignificant to share 451 451 452 -(% class="small" %)Curation Scientist, 453 -Phd Student 454 -Neuroscience (M. Sc.)(%%) 455 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and data integration** 456 -)))|(% style="width:303px" %)((( 457 -[[image:My project (1).jpg||height="209" width="167"]] 458 458 459 - **IngridReiten**368 +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. 460 460 461 -(% class="small" %)Curation Scientist, 462 -Phd Student 463 -Neuroscience (M. Sc.)(%%) 464 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and structural connectivity** 465 -)))|(% style="width:303px" %)((( 466 -[[image:My project1.jpg||height="209" width="167"]] 370 +>My data can easily be misused if I share it with the world 467 467 468 -**Sophia Pieschnik** 469 469 470 -(% class="small" %)Curation Scientist 471 -Neurocognitive Psychology (M. Sc.)(%%) 472 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroimaging ** 473 -))) 373 +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. 474 474 475 -|(% style="width:303px" %)((( 476 -[[image:My project.jpg||height="209" width="167"]] 375 +>I don't think I'm allowed to share my data 477 477 478 -**Heidi Kleven** 479 479 480 -(% class="small" %)Curation Scientist, 481 -Phd Student 482 -Neuroscience (M. Sc.)(%%) 483 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and brain atlases** 484 -)))| | | 378 +Many institutions are still very careful about what can be shared and how, but the situation is constantly evolving. As a researcher providing data, you will be asked to fill out an ethics compliance survey which survey to ensure that data published through the EBRAINS platform has been collected according to EU regulations. We are working on solutions for sharing anonymised human data that complies with GDPR standards to protect the identity of research subjects. 485 485 486 - 487 -\\**Located in Germany** 380 +>I can't share my data before my paper is published 488 488 489 -|(% style="width:303px" %)((( 490 -[[image:My project (2).jpg||height="209" width="167"]] 491 491 492 - **JanGündling**383 +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. 493 493 494 -(% class="small" %)Curation Scientist, 495 -Phd Student 496 -Sensors and Cognitive Psychology (M. Sc.)(%%) 497 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Human-Computer Interaction** 498 -)))|(% style="width:303px" %)((( 499 -[[image:Lyuba.jpg||height="209" width="167"]] 385 +>If I share my data before I publish the associated paper, I will lose my competitive edge 500 500 501 -**Lyuba Zehl** 502 502 503 -(% class="small" %)Knowledge Systems Engineer 504 -Dr. rer. nat. (Systems Neuroscience)(%%) 505 -(% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis** 506 -)))|(% style="width:303px" %) |(% style="width:303px" %) 388 +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. 507 507 508 ----- 509 509 510 - 511 - 512 512 ---- 513 513 514 514 == Contact == ... ... @@ -515,16 +515,9 @@ 515 515 516 516 [[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]] 517 517 518 ----- 519 519 520 -== Affiliated laboratories == 521 - 522 -//Institute of Basic Medical Sciences,** **University of Oslo, Norway (PI: Jan G. Bjaalie, Trygve B. Leergaard)// 523 - 524 -//Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich, Germany (PI: Timo Dicksheid)// 525 - 526 ----- 527 - 528 -== References == 529 - 530 530 {{putFootnotes/}} 399 +~)~)~)~)~)~) 400 +~)~)~) 401 +~)~)~)~)~)~)~)~)~) 402 +~)~)~)~)~)~)
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