taverna-prov: Taverna Workflow Engine Prov Export

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Taverna-prov is a plugin for the Taverna Workbench and Taverna Command Line – a scientific workflow engine. The plugin allows the export of the provenance of a workflow run according to the W3C PROV-O standard. The provenance is exported as a .bundle.zip file  which species a structured ZIP file with a manifest (.ro/manifest.json) that corresponds to the RO bundle specification. The following… Read more »

myExperiment.org

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myExperiment provides an early example of the use of Research Objects through the use of “packs”. myExperiment packs are represented using OAI-ORE and available as linked data and hence semantically-described for ease of discovery and reuse. They typically contain computational workflows, although this is not essential – the bundles are useful anyway, and this is… Read more »

PAV – Provenance, Authoring, and Versioning

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PAV is a lightweight ontology for tracking Provenance, Authoring and Versioning. PAV specializes the W3C provenance ontology PROV-O in order to describe authorship, curation and digital creation of online resources.

Dataset Descriptions: HCLS Community Profile

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Access to consistent, high-quality metadata is critical to finding, understanding, and reusing scientific data. The Dataset Descriptions specification describes a consensus among participating stakeholders in health care and the life sciences domain on the description of datasets using the Resource Description Framework (RDF). The reuses existing vocabularies to that extent that it is possible, and… Read more »

PROV Provenance Model

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Provenance is information about entities, activities, and people involved in producing a piece of data or thing, which can be used to form assessments about its quality, reliability or trustworthiness. The PROV Family of Documents defines a model, corresponding serializations and other supporting definitions to enable the inter-operable interchange of provenance information in heterogeneous environments… Read more »

Nanopublications

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Nano publications provides a model and vocabulary for describing a scientific statement – along with the context for that statement – in a machine readable manner.   From nanopub.org: A publication is the smallest unit of publishable information: an assertion about anything that can be uniquely identified and attributed to its author. Individual nanopublications can… Read more »

ReproZip

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Reprozip is a project led by Prof. Juliana Freire at NYU, to develop a tool that makes it easier for authors to publish reproducible results and for reviewers to validate these results. By tracking operating system calls, ReproZip systematically captures detailed provenance of existing experiments, including data dependencies, libraries used, and configuration parameters. This information is combined… Read more »

VIVO-ISF Ontology

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VIVO is an open source application implementing semantic web principles and technologies to represent academic research communities. When populated with researcher interests, activities, and accomplishments, VIVO enables the discovery of research and scholarship across disciplines at one institution or across many. The Integrated Semantic Framework ontology modules for VIVO (the VIVO-ISF ontology) provide a set of types… Read more »