Annif is an open source toolkit for automated subject indexing. It integrates several machine learning and AI based algorithms for text classification.
The HydroShare architecture is a stack of storage and computation, web services, and user applications. A content management system, Django+Mezzanine, provides user interface, search, social media functions, and services. iRODS provides content storage. A web browser is the main interface to HydroShare, however a web services applications programming interface (API) supports access through other hydrologic modeling systems, and the architecture separates the interface layer and services layer exposing all functionality through these web services.
BioSchemas relies and extends from schema.org and aims to reuse existing standards and reach consensus among a wide number of life sciences organizations and communities.
This document specifies a method of organising file-based data with associated metadata, known as DataCrate in both human and machine readable formats, based on the schema.org linked-data vocabularly, supplemented with terms from the SPAR ontologies and [PCDM] where schema.org does not have coverage. The motivation for this work comes from the research domain.
A DataCrate is a dataset a set of files contained in a single directory. There are two ways of organizing a DataCrate.
For working data or data that does not need to be distributed with checksums, a Working DataCrate is a plain-old directory containing payload data files, with two metadata files at the root; one for humans and one for machines.
For distribution, or archiving; where integrity is important, a Bagged DataCrate is a BagIt bag conforming to the DataCrate BagIt profile with the payload files in the /data directory. A Bagged DataCrate has a clear separation between metadata and payload, and can be integrity-checked using the checksums in the BagIt manifest.
The 'German Network for Bioinformatics Infrastructure – de.NBI' is a national, academic and non-profit infrastructure supported by the Federal Ministry of Education and Research providing bioinformatics services to users in life sciences research and biomedicine in Germany and Europe. The partners organize training events, courses and summer schools on tools, standards and compute services provided by de.NBI to assist researchers to more effectively exploit their data.
A. Goodman, A. Pepe, A. Blocker, C. Borgman, K. Cranmer, M. Crosas, R. Di Stefano, Y. Gil, P. Groth, M. Hedstrom and 5 other author(s). (2014)cite arxiv:1401.2134Comment: Accepted in PLOS Computational Biology. This paper was written collaboratively, on the web, in the open, using Authorea. The living version of this article, which includes sources and history, is available at http://www.authorea.com/3410/.