Fundamentals Research Data Management FAIR Data Principles Metadata Ontologies Data Sharing Data Publications Data Management Plan Version Control & Git Public Data Repositories Persistent Identifiers Implementation within DataPLANT Annotated Research Context User Journey ARC Commander QuickStart QuickStart (experts) Swate QuickStart Walk-through Best Practices For Data Annotation DataHUB DataPLAN ARC Commander Manual Setup Installing Dependencies Configure Git Installing the ARC Commander Windows MacOS Linux DataHUB Access Before we start Central Functions Initialize Clone Connect Synchronize Configure Branch ISA Metadata Functions ISA Metadata Investigation Study Assay Update Export Swate Manual Setup Installing Swate Browser Desktop, via installer (beta-stage) Desktop, manually (recommended) MacOS Organization-wide Core Features Annotation tables Building blocks Building Block Types Adding a Building Block Using Units with Building Blocks Filling cells with ontology terms Advanced Term Search Templates Contribute Templates File Picker Expert Features ISA-JSON Frequently Asked Questions Teaching Materials DataPLANT Overview Big Picture ARC structure ARC Demo

Frequently Asked Questions

last updated at 2023-05-11 General
Is it necessary to fill in the empty fields in the investigation-file manually? No. Although it is possible to fill in the workbook manually, we recommend using ARC Commander to add this metadata.

Annotated Research Context
Should the metadata annotation be made in the same document in which the dataset resides? No. The metadata describing the data is annotated in a separate xlsx-file that resides in the parent folder of the data sets.
Is it necessary to fill in the empty fields in the investigation-file manually? No. Although it is possible to fill out the workbook manually, we recommend using ARC Commander to add this metadata.

ARC Commander
Are there any recommendations for titles or identifiers? Avoid using spaces in the identifier. Use underscores and capital letters instead. There are no specific restrictions regarding the title. Although it is possible to fill in the workbook manually, we recommend using ARC Commander to add this metadata.
How to retrieve a valid access token? Please follow the short instructions below.

Alternatively, please visit #157 in the ARC Commander repository's discussion section for detailed instructions.

Note: This also works for "arc get"

TLDR:

git clone https://oauth2:TOKENSTRING@git.nfdi4plants.org/abc/xyz

Swate
Is it possible to use common Excel functionalities? Yes. In fact, this is one of the reasons why we decided to embed Swate within Excel, as it allows users to continue using the Excel functionality they are accustomed to.
Do I have to fill in all columns when using a template? No. However, if you want to submit your data to a public data repository, these will require specific metadata. For this purpose we provide the corresponding templates helping you to annotate your data accordingly.

ISA
Which format must be used to enter a date? String formatted as ISO8601 date: YYYY-MM-DD

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DataPLANT Support

Besides these technical solutions, DataPLANT supports you with community-engaged data stewardship. For further assistance, feel free to reach out via our helpdesk or by contacting us directly .
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