Tools and Services
G-Node provides various services and tools to facilitate data access, data management, and data sharing.
The Electrophysiology Task Force of the INCF Program on Standards for Data Sharing aims at developing standardized methods and models for storing electrophysiology and other neuroscience data together with their metadata in one common file format based on HDF5.
Starting from these efforts we developed a file format that uses highly generic models for experimental data and metadata, and defines standard schemata for HDF5 files representing these models (Stoewer et al 2014). Version 1.0 is available with libraries for C++ on Windows and Linux, as well as Python, Matlab and Java bindings.
Neuroshare is a standard API to access data in proprietary formats, which is supported by many vendors. We develop a number of tools to facilitate data access through Neuroshare, such as
- A Neuroshare to HDF5 Converter
- A library to use Neuroshare on Unix(-like) Systems
- Python Bindings for Neuroshare
- Matlab Bindings for Neuroshare
Data Objects for Neurophysiology
In a collaboration with people from the Bernstein Center Munich
we develop a standard metadata format for data annotation in electrophysiology, odML,
which accounts for the variety of experimental approaches
by providing flexibility in terms of the information that is stored (Grewe et al 2011).
Terminologies for Electrophysiology
are part of the odML metadata approach. Using a common terminology facilitates data sharing and reproducibility of experiments. We invite the community to provide input and feedback.
Data Management and Sharing
The G-Node data management platform is a service that lets you organize, annotate, and access your data through a web browser, which is a great way of ensuring access to your data wherever you are, and for sharing your data with your collaborators or the public.
Currently the infrastructure of this service is revised to utilize state-of-the-art technology for versioned data management and create compatibility with other developments in the field, such as DataLad (datalad.org).
G-Node is a DOI Data Center and can provide Digital Object Identifiers for hosted datasets. If you want to have your data citable by a DOI, or if you have other specific data management or data sharing requirements that cannot be dealt with using our standard services, please contact us at firstname.lastname@example.org
Hosted Services and Collaborations
We support the continued development of Rolf Kötter's
Database of Cortical Connectivity in the Macaque and host
an new version of the database with improved features and
an improved interface at cocomac.g-node.org
(The original Cocomac database will continue to be available at cocomac.org)
Spike Sorting Validation
In a collaboration with people from the Bernstein Center Berlin
and the Norwegian INCF Node we are setting up a web site for
the validation of spike sorting methods. This site provides benchmark datasets and automatically
evaluates the sorting results uploaded by users who want
to benchmark their spike sorting methods.
Teaching and Training
G-Node runs and supports different training activities in Neuroinformatics, such as
and the course on
We are also involved in the INCF activities to promote training in neuroinformatics.