Neuroinformatics

, Volume 5, Issue 2, pp 96–104

MorphML: Level 1 of the NeuroML Standards for Neuronal Morphology Data and Model Specification

  • Sharon Crook
  • Padraig Gleeson
  • Fred Howell
  • Joseph Svitak
  • R. Angus Silver
Article

DOI: 10.1007/s12021-007-0003-6

Cite this article as:
Crook, S., Gleeson, P., Howell, F. et al. Neuroinform (2007) 5: 96. doi:10.1007/s12021-007-0003-6

Abstract

Quantitative neuroanatomical data are important for the study of many areas of neuroscience, and the complexity of problems associated with neuronal structure requires that research from multiple groups across many disciplines be combined. However, existing neuron-tracing systems, simulation environments, and tools for the visualization and analysis of neuronal morphology data use a variety of data formats, making it difficult to exchange data in a readily usable way. The NeuroML project was initiated to address these issues, and here we describe an extensible markup language standard, MorphML, which defines a common data format for neuronal morphology data and associated metadata to facilitate data and model exchange, database creation, model publication, and data archiving. We describe the elements of the standard in detail and outline the mappings between this format and those used by a number of popular applications for reconstruction, simulation, and visualization of neuronal morphology.

Keywords

Neuronal morphologyNeuronal digitizationMorphMLNeuroMLNeuroanatomical dataNeuroscience standardsNeurolucida

Copyright information

© Humana Press Inc. 2007

Authors and Affiliations

  • Sharon Crook
    • 1
  • Padraig Gleeson
    • 2
  • Fred Howell
    • 3
  • Joseph Svitak
    • 4
  • R. Angus Silver
    • 2
  1. 1.Department of Mathematics and StatisticsSchool of Life Sciences, and Center for Adaptive Neural Systems, Arizona State UniversityTempeUSA
  2. 2.Department of PhysiologyUniversity College LondonLondonUK
  3. 3.Institute of Adaptive and Neural ComputationUniversity of EdinburghEdinburghUK
  4. 4.Research Imaging CenterUniversity of Texas Health Science Center at San AntonioSan AntonioUSA