Tag: software

GigaDB primarily serves as a repository to host data and tools associated with articles in GigaScience; however, it also includes a subset of datasets that are not associated with GigaScience articles. GigaDB defines a dataset as a group of files (e. ...

ModelDB provides an accessible location for storing and efficiently retrieving computational neuroscience models. A ModelDB entry contains a model's source code, concise description, and a citation of the article that published it. Models can be code ...

Neuroimaging Informatics Tools and Resources Collaboratory Resources Registry (NITRC-R) describes software tools and resources, vocabularies, test data, and databases. It is intended to extend the impact and longevity of previously funded neuroimagin ...

bio.tools is a registry of information about bioinformatics software and data services. It was created to help researchers in biological and biomedical science to find and use such resources.

The Software Ontology (SWO) is a resource for describing software tools, their types, tasks, versions, provenance and associated data. SWO also covers software manufacturer, input and output data types and the uses (i.e. objectives) to which the soft ...

The CardioVascular Research Grid (CVRG) project is creating an infrastructure for sharing cardiovascular data and data analysis tools. CVRG tools are developed using the Software as a Service model, allowing users to access tools through their browse ...

Wiki on all aspects of next-generation genomics. The SEQanswers wiki is a Semantic MediWiki (SMW) site that is edited and updated by the members of the SEQanswers community. The wiki provides an extensive catalogue of manually categorized analysis to ...

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development.

Code Ocean is a cloud-based computational reproducibility platform that provides researchers and developers an easy way to share, discover and run code published in academic journals and conferences. The platform provides open access to the published ...

Biomedical data repositories such as the Gene Expression Omnibus (GEO) enable the search and discovery of relevant biomedical digital data objects. Similarly, resources such as OMICtools index bioinformatics tools that can extract knowledge from thes ...

The BioSimulators conventions encompass several conventions for biosimulation tools (see below). In combination with modeling languages such as Cell-ML and SBML, SED-ML, KISAO, and COMBINE/OMEX, the BioSimulators standards enable investigators to use ...

The Citation File Format (CFF) is a human-centric, machine-readable format for software citation metadata. It is developed to provide an easy way for RSEs, and other developers of software in academia, to ensure that they can receive credit for their ...

BioCode is a repository for bioinformatics software.

CodeMeta contributors are creating a minimal metadata schema for science software and code, in JSON and XML. The goal of CodeMeta is to create a concept vocabulary that can be used to standardize the exchange of software metadata across repositories ...

SourceForge is a free Open Source software repository providing services including version control, issue tracking and wiki pages.

Savannah aims to be a central point for development, maintenance and distribution of official GNU software. In addition, for projects that support free software but are not part of GNU, a separate area of the resource is available. Savannah hosts fre ...

ourproject.org is a free content repository, which has translated the Free Software initiative to other fields. It includes content beyond software projects, allowing any kind of social, cultural or artistic projects to also be included.

Launchpad is a software and source code repository with a number of features including bug tracking, translations, new feature tracking and both Bazaar and Git version control.

The Open Source Development Network (OSDN) is a free-of-charge service and software repository for open source software developers. OSDN includes a SVN/Git/Mercurial/Bazaar/CVS version-controlled repository, mailing list, bug tracking system, bulleti ...

nmrshiftdb is a NMR database (web database) for organic structures and their nuclear magnetic resonance (nmr) spectra. It allows for spectrum prediction (13C, 1H and other nuclei) as well as for searching spectra, structures and other properties. Las ...

GitHub Inc. is a Git-based software repository that provides version control. It offers all of the distributed version control and source code management (SCM) functionality of Git as well as adding its own features. It provides access control and se ...

GitLab is a Git-based source code repository with wiki and issue tracker functionality. It provides a number of different access levels, from free through to a number of paid services.

CRAN is a network of ftp and web servers around the world that store identical, up-to-date, versions of code and documentation for R.

Bitbucket is a Git-based source code repository hosting service owned by Atlassian. It provides a number of different access levels, from free through to premium paid services. Users can create public or private repositories, the latter of which is r ...

Groundbreaking biomedical research requires access to cutting edge scientific resources; however such resources are often invisible beyond the laboratories or universities where they were developed. eagle-i is a discovery platform that helps biomedic ...

NAGRP Blast Center aggregates various sequence databases and makes them accessible via its website.