Send to

Choose Destination
See comment in PubMed Commons below
Front Neuroinform. 2013 Apr 9;7:5. doi: 10.3389/fninf.2013.00005. eCollection 2013.

RipleyGUI: software for analyzing spatial patterns in 3D cell distributions.

Author information

  • 1Department of Neuroscience, Karolinska Institutet Stockholm, Sweden ; Mathematical Statistics, Centre for Mathematical Sciences, Lund University Lund, Sweden.


The true revolution in the age of digital neuroanatomy is the ability to extensively quantify anatomical structures and thus investigate structure-function relationships in great detail. To facilitate the quantification of neuronal cell patterns we have developed RipleyGUI, a MATLAB-based software that can be used to detect patterns in the 3D distribution of cells. RipleyGUI uses Ripley's K-function to analyze spatial distributions. In addition the software contains statistical tools to determine quantitative statistical differences, and tools for spatial transformations that are useful for analyzing non-stationary point patterns. The software has a graphical user interface making it easy to use without programming experience, and an extensive user manual explaining the basic concepts underlying the different statistical tools used to analyze spatial point patterns. The described analysis tool can be used for determining the spatial organization of neurons that is important for a detailed study of structure-function relationships. For example, neocortex that can be subdivided into six layers based on cell density and cell types can also be analyzed in terms of organizational principles distinguishing the layers.


Ripley's K-function; cell distribution; neuroanatomical method; software; spatial point pattern

PubMed Commons home

PubMed Commons

How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for Frontiers Media SA Icon for PubMed Central
    Loading ...
    Support Center