Validate and transform NeuroML files
NeuroML is an international initiative to facilitate greater interoperability between compuational
neuroscience tools by producing standardised descriptions of elements common to many software packages used for visualising,
simulating and analysing neuronal systems.
The current approach uses XML Schemas
to define the specification. A very good introduction to XML and reference guide can be found here.
Note: To find out more about the current activities in the NeuroML project please see the
The current version of the specification is: v1.8.1
(June 2009, Release notes)
There are three Levels of compliance to the NeuroML standards:
- Level 1
is focused on the anatomical aspects of the cells. This consists of a schema for metadata,
Metadata_v1.8.1.xsd (which can be also used to describe
elements at any subsequent level), and the main MorphML schema, MorphML_v1.8.1.xsd.
Valid morphology files can be mapped to NEURON or GENESIS format.
- Level 2 adds the ability
to include information on the biophysical properties of cells (specific capacitance, axial resistance, location and density of
membrane conductances, etc.) Biophysics_v1.8.1.xsd,
and on the properties of specific channel and synaptic mechanisms, ChannelML_v1.8.1.xsd.
Examples are given for valid ChannelML files which can be mapped to
scripts for the NEURON and GENESIS
Any Level 1 or Level 2 XML file to will be compliant to NeuroML_Level2_v1.8.1.xsd
- Level 3 allows
specification of cell placement and network connectivity. The core of this is specified in NetworkML_v1.8.1.xsd
The best way to get to understand the structure of the standards is to look at the source XML of the examples. Some of these are: