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description: This is the RO-Crate for the article about RO-Crate, submitted to Data Science. The manuscript is included in HTML and PDF versions. Additionally this crate adds the latest RO-Crate specifications and known RO-Crate implementations.
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identifier: https://doi.org/10.5281/zenodo.5146227
keywords: Research Object, Linked Data, Scholarly Communication, Data publishing, Data packaging, FAIR, Metadata, Reproducibility
license: CC-BY-4.0
mentions: community
name: Packaging research artefacts with RO-Crate
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date published: 2021-08-13T14:00:00Z
url: https://www.researchobject.org/2021-packaging-research-artefacts-with-ro-crate/

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abstract: An increasing number of researchers support reproducibility by including pointers to and descriptions of datasets, software and methods in their publications. However, scientific articles may be ambiguous, incomplete and difficult to process by automated systems. In this paper we introduce RO-Crate, an open, community-driven, and lightweight approach to packaging research artefacts along with their metadata in a machine readable manner. RO-Crate is based on Schema.org annotations in JSON-LD, aiming to establish best practices to formally describe metadata in an accessible and practical way for their use in a wide variety of situations. An RO-Crate is a structured archive of all the items that contributed to a research outcome, including their identifiers, provenance, relations and annotations. As a general purpose packaging approach for data and their metadata, RO-Crate is used across multiple areas, including bioinformatics, digital humanities and regulatory sciences. By applying “just enough” Linked Data standards, RO-Crate simplifies the process of making research outputs FAIR while also contributes to enhancing research reproducibility.
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sd date published: 2021-08-13T12:35:00Z

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author: https://orcid.org/0000-0003-1219-2137
author: https://orcid.org/0000-0002-4806-5140
author: https://orcid.org/0000-0002-7370-4805
author: https://orcid.org/0000-0002-5491-6431
author: https://orcid.org/0000-0002-2961-9670
author: 0000-0002-6190-122X
author: https://orcid.org/0000-0002-2036-8350
author: https://orcid.org/0000-0001-8420-5254
author: https://orcid.org/0000-0002-3588-6257
author: 0000-0002-0309-604X
author: https://orcid.org/0000-0002-5711-4872
author: https://orcid.org/0000-0003-2130-0865
author: https://orcid.org/0000-0003-3156-2105
author: https://orcid.org/0000-0003-1130-2154
author: https://orcid.org/0000-0002-0048-3300
author: https://orcid.org/0000-0002-1756-2128
author: https://orcid.org/0000-0002-7552-1009
author: https://orcid.org/0000-0003-4929-1219
author: https://orcid.org/0000-0003-1541-5631
author: https://orcid.org/0000-0002-0337-8610
author: 0000-0001-6960-357X
author: https://orcid.org/0000-0003-0183-6910
author: https://orcid.org/0000-0003-0223-1059
author: https://orcid.org/0000-0003-3986-0510
author: https://orcid.org/0000-0001-6022-9825
author: https://orcid.org/0000-0002-3468-0652
author: https://orcid.org/0000-0003-1991-0533
author: https://orcid.org/0000-0003-3910-0474
author: https://orcid.org/0000-0003-3486-8193
author: https://orcid.org/0000-0001-8172-8981
license: Apache-2.0
name: RO-Crate Metadata Specification 1.1.1
subject of: https://www.researchobject.org/ro-crate/1.1/ro-crate-metadata.jsonld
url: https://www.researchobject.org/ro-crate/1.1/ro-crate-preview.html
version: 1.1.1

Person
family name: Arfaoui
given name: Ghaith
name: Ghaith Arfaoui

paradisec
type: WebPage
name: Case Study: Modern PARADISEC

frl01-006423291
type: ScholarlyArticle
author: https://orcid.org/0000-0002-4929-7875
author:
  family name: Jaoua
  given name: Maroua
  name: Maroua Jaoua
author: Person
name: Research Object Crates and Machine-actionable Data Management Plans

zenodo.3903463
type: SoftwareApplication
application category: CLI
audience: dmp-users
author: Person
  family name: Brenner
  given name: Gabriel
  name: Gabriel Brenner
creative work status: Beta
description: Convert between machine-actionable data management plans (maDMP) and RO-Crate
name: Ro-Crate_2_ma-DMP
software requirements: Python
url: https://github.com/BrennerG/Ro-Crate_2_ma-DMP

zenodo.3922136
type: SoftwareApplication
application category: CLI
audience: dmp-users
author: Person
author: Person
  family name: Jaoua
  given name: Maroua
  name: Maroua Jaoua
citation: frl01-006423291
creative work status: Beta
description: Mapping between machine-actionable data management plans (maDMP) and RO-Crate
name: RDA maDMP Mapper
software requirements: Python
url: https://github.com/GhaithArf/ro-crate-rda-madmp-mapper

zenodo.4671709
type: PresentationDigitalDocument
author: Person
  family name: Vergoulis
  given name: Thanasis
  name: Thanasis Vergoulis
name: Use of RO-Crates in SCHeMa

zenodo.4705143
type: SoftwareApplication
audience: Developers
author: https://orcid.org/0000-0001-8271-5429
author: https://orcid.org/0000-0001-9842-9718
author: 0000-0002-6190-122X
author: https://orcid.org/0000-0003-0522-5674
author: alban
author: https://orcid.org/0000-0003-4929-1219
creative work status: Alpha
description: Object-oriented Python library for reading/writing RO-Crate
name: ro-crate-py
software requirements: Python
url: https://github.com/researchobject/ro-crate-py/

software
type: Dataset
description: Applications and libraries implementing RO-Crate, targeting different types of users across multiple programming languages. creativeWorkStatus is indicative as assessed by this work (Alpha < Beta < Release Candidate (RC) < Release)
has part: describo
has part: describo-online
has part: ro-crate-excel
has part: ro-crate-html-js
has part: ro-crate-js
has part: ro-crate-ruby
has part: zenodo.4705143
has part: about-workflowhub
has part: about-lifemonitor
has part: athenarc-schema
has part: galaxy2cwl
has part: modpdsc
has part: arkisto-data-portal
has part: ocfl-tools
has part: ro-composer
has part: zenodo.3922136
has part: zenodo.3903463
has part: CheckMyCrate
name: RO-Crate Software (Table 1)

CheckMyCrate
type: SoftwareApplication
abstract: A command line application for validating a RO-Crate object against a JSON profile.
alternate name: KockataEPich/CheckMyCrate
application category: CLI
audience: Developers
author: Person
  family name: Belchev
  given name: Kostadin
  name: Kostadin Belchev
creative work status: Alpha
description: Validation according to Workflow RO-Crate profile
name: CheckMyCrate
software requirements: Python
url: https://github.com/KockataEPich/CheckMyCrate

Data-managers
type: Audience
name: Data managers

Developers
type: Audience
name: Developers

Platform-developers
type: Audience
name: Platform developers

Repository-developers
type: Audience
name: Repository developers

Repository-managers
type: Audience
name: Repository managers

Research-Data-Managers
type: Audience
name: Research Data Managers

Workflow-developers
type: Audience
name: Workflow developers

Workflow-users
type: Audience
name: Workflow users

about-lifemonitor
type: SoftwareApplication
application category: Web
application sub category: API
audience: Workflow-developers
creative work status: Alpha
description: Workflow testing and monitoring service; Workflow Testing profile of RO-Crate
name: Life Monitor
software requirements: Python
url: https://about.lifemonitor.eu/

about-workflowhub
type: SoftwareApplication
application category: Web
audience: Workflow-developers
audience: Workflow-users
creative work status: Beta
description: Workflow repository; imports and exports Workflow RO-Crate
name: WorkflowHub
software requirements: Ruby
url: https://about.workflowhub.eu/

alban
type: Person
family name: Gaignard
given name: Alban
name: Alban Gaignard

arkisto-data-portal
type: SoftwareApplication
application category: Platform
application category: Web
audience: Repository-managers
creative work status: Beta
description: Platform for publishing data and documents stored in an OCFL repository via a web interface
name: ONI express
software requirements: Docker
url: https://arkisto-platform.github.io/tools/portal/

athenarc-schema
type: SoftwareApplication
application category: Web
audience: Workflow-users
creative work status: Alpha
description: Workflow execution using RO-Crate as exchange mechanism [@doi:]
name: SCHeMa
software requirements: PHP
subject of: zenodo.4671709
url: https://github.com/athenarc/schema

describo
type: SoftwareApplication
application category: Desktop
audience: Research-Data-Managers
author: https://orcid.org/0000-0001-5383-6993
author: 0000-0002-3545-944X
creative work status: RC
description: Interactive desktop application to create, update and export RO-Crates for different profiles
install url: https://github.com/Arkisto-Platform/describo/releases
name: Describo
software requirements: NodeJS
url: https://arkisto-platform.github.io/describo/

describo-online
type: SoftwareApplication
application category: Web
audience: Platform-developers
author: https://orcid.org/0000-0001-5383-6993
creative work status: Alpha
description: Web-based application to create RO-Crates using cloud storage
name: Describo Online
software requirements: NodeJS
url: https://arkisto-platform.github.io/describo-online/

dmp-users
type: Audience
name: Data Management Plan users

galaxy2cwl
type: SoftwareApplication
application category: CLI
audience: Workflow-developers
author: 0000-0002-6190-122X
creative work status: Alpha
description: Wraps Galaxy workflow as Workflow RO-Crate
install url: https://pypi.org/project/galaxy2cwl/
name: galaxy2cwl
software requirements: Python
url: https://github.com/workflowhub-eu/galaxy2cwl

modpdsc
type: WebApplication
application category: Web
audience: Repository-managers
creative work status: Beta
description: Cultural Heritage portal based on OCFL and RO-Crate
download url: https://github.com/CoEDL/modpdsc/
funder: ardc.edu.au
name: Modern PARADISEC
subject of: paradisec
url: http://mod.paradisec.org.au/

ocfl-tools
type: SoftwareApplication
application category: CLI
audience: Repository-developers
creative work status: Beta
description: Tools for managing RO-Crates in an OCFL repository
name: ocfl-tools
software requirements: JavaScript
url: https://github.com/CoEDL/ocfl-tools

ro-composer
type: SoftwareApplication
application category: Web
application sub category: API
audience: Repository-developers
author: https://orcid.org/0000-0001-9842-9718
author: https://orcid.org/0000-0002-0048-3300
author: Person
  family name: Soares e Silva
  given name: Marina
  name: Marina Soares e Silva
creative work status: Alpha
description: REST API for gradually building ROs for given profile.
download url: https://github.com/ResearchObject/research-object-composer
funder: www.mendeley.com
name: RO Composer
software requirements: Java
url: https://esciencelab.org.uk/projects/ro-composer/

ro-crate-excel
type: SoftwareApplication
application category: CLI
audience: Data-managers
creative work status: Beta
description: Command-line tool to help create RO-Crates and HTML-readable rendering
install url: https://www.npmjs.com/package/ro-crate-excel
name: ro-crate-excel
software requirements: JavaScript
url: https://github.com/UTS-eResearch/ro-crate-excel

ro-crate-html-js
type: SoftwareApplication
application category: CLI
audience: Developers
creative work status: Beta
description: HTML rendering of RO-Crate
install url: https://www.npmjs.com/package/ro-crate-html-js
name: ro-crate-html-js
software requirements: JavaScript
url: https://github.com/UTS-eResearch/ro-crate-html-js

ro-crate-js
type: SoftwareApplication
application category: Library
audience: Research-Data-Managers
author: Person
  family name: Lynch
  given name: Mike
  name: Mike Lynch
author: 0000-0002-3545-944X
creative work status: Alpha
description: Library for creating/manipulating crates; basic validation code
install url: https://www.npmjs.com/package/ro-crate
name: ro-crate-js
software requirements: JavaScript
url: https://github.com/UTS-eResearch/ro-crate-js

ro-crate-ruby
type: SoftwareApplication
audience: Developers
author: https://orcid.org/0000-0002-0048-3300
author: Person
  family name: Whitwell
  given name: Martyn
  name: Martyn Whitwell
creative work status: Beta
description: Ruby library for reading/writing RO-Crate, with workflow support
name: ro-crate-ruby
software requirements: Ruby

www.mendeley.com
type: Organization
name: Mendeley Ltd