Fundamentals Research Data Management FAIR Data Principles Metadata Ontologies Data Sharing Data Publications Data Management Plan Version Control & Git Public Data Repositories Persistent Identifiers Electronic Lab Notebooks (ELN)

DataPLANT Implementations

Annotated Research Context ARC specification

ARC Commander Swate MetadataQuiz DataHUB DataPLAN Ontology Service Landscape

Setup Git Installation

ARC Commander Installation Windows MacOS Linux

ARC Commander DataHUB Access

Before we start

Central Functions Initialize Clone Connect Synchronize Configure Branch

ISA Metadata Functions

ISA Metadata Investigation Study Assay

ARCitect Installation - Windows Installation - macOS Installation - Linux QuickStart QuickStart - Videos

ARCmanager What is the ARCmanager? Connect to your DataHUB View your ARCs Create new ARCs Add new studies and assays Upload files Add metadata to your ARCs

Swate QuickStart QuickStart - Videos Annotation tables

Building blocks Building Block Types Adding a Building Block

Filling cells with ontology terms Advanced Term Search File Picker Templates Contribute Templates ISA-JSON

DataHUB Overview

User Settings Generate a Personal Access Token (PAT)

ARC Panel Forks Working with files ARC Settings ARC Wiki

Groups Panel Create a new user group

CQC Pipelines & validation Find and use ARC validation packages

Data publications Passing Continuous Quality Control Submitting ARCs with ARChigator Track publication status Use your DOIs

Guides ARC User Journey

Create your ARC ARCitect QuickStart ARCitect QuickStart - Videos ARC Commander QuickStart ARC Commander QuickStart (Experts)

Annotate Data in your ARC Annotation Principles ISA File Types Best Practices For Data Annotation Swate QuickStart Swate QuickStart - Videos Swate Walk-through

Share your ARC Register at the DataHUB DataPLANT account Invite collaborators to your ARC Sharing ARCs via the DataHUB

Work with your ARC Using ARCs with Galaxy

Computational Workflows CWL Introduction CWL runner installation CWL Examples CWL Metadata

Recommended ARC practices Syncing recommendation Keep files from syncing to the DataHUB Managing ARCs across locations Working with large data files Adding external data to the ARC ARCs in Enabling Platforms Publication to ARC

Troubleshooting Git Troubleshooting & Tips

Contribute Swate Templates Knowledge Base

Teaching Materials

Events 2023 Nov: CEPLAS PhD Module Oct: CSCS CEPLAS Start Your ARC Sept: MibiNet CEPLAS Start Your ARC July: RPTU Summer School on RDM July: Data Steward Circle

May: CEPLAS Start Your ARC Series Start Your ARC Series - Videos

Events 2024 TRR175 Becoming FAIR CEPLAS ARC Trainings – Spring 2024 MibiNet CEPLAS DataPLANT Tool-Workshops TRR175 Tutzing Retreat

Frequently Asked Questions

Connect an ARC to the DataHUB

last updated at 2022-12-13

In case you have not yet connected your local repository to a remote one, you can specify the remote repository with the flag --repositoryaddress or -r in combination with a URL + ".git", e.g.,

arc sync -r https://gitlab.nfdi4plants.de/<YourUserName>/<YourARC>

💡 If your local repository is not connected to a remote repository, arc sync will only track and store changes locally. The ARC Commander will not synchronize any changes to the DataHUB.

Contribution Guide 📖

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