[ExI] Fwd: Neuromap software freely available

Bryan Bishop kanzure at gmail.com
Fri Mar 11 07:30:25 UTC 2011

---------- Forwarded message ----------
From: Blaise Yvert <blaise.yvert at u-bordeaux1.fr>
Date: Fri, Mar 11, 2011 at 1:23 AM
Subject: [mea-users] Neuromap software freely available
To: mea-users at yahoogroups.com

  Dear colleagues, dear friends,

We are pleased to announce the recent publication of the following paper
describing Neuromap, a matlab-based software that we make available to the
community under the GNU GPL license. Please, feel free to download and use
it !

Abdoun O, Joucla S, Mazzocco C, Yvert B. (2011) *NeuroMap : A spline-based
interactive open-source software for spatiotemporal mapping of 2D and 3D MEA
data.* Frontiers in Neuroinformatics, 4:119. doi:10.3389/fninf.2010.00119.

A major characteristic of neural networks is the complexity of their
organization at various spatial scales, from microscopic local circuits to
macroscopic brain-scale areas. Understanding how neural information is
processed thus entails the ability to study them at multiple scales
simultaneously. This is made possible using microelectrodes array (MEA)
technology. Indeed, high-density MEAs provide large-scale coverage (several
square millimeters) of whole neural structures combined with microscopic
resolution (about 50 μm) of unit activity. Yet, current options for
spatiotemporal representation of MEA-collected data remain limited. Here we
present NeuroMap, a new interactive Matlab-based software for spatiotemporal
mapping of MEA data. NeuroMap uses thin plate spline interpolation, which
provides several assets with respect to conventional mapping methods used
currently. First, any MEA design can be considered, including 2D or 3D,
regular or irregular, arrangements of electrodes. Second, spline
interpolation allows the estimation of activity across the tissue with local
extrema not necessarily at recording sites. Finally, this interpolation
approach provides a straightforward analytical estimation of the spatial
Laplacian for better current sources localization. In this software,
coregistration of 2D MEA data on the anatomy of the neural tissue is made
possible by fine matching of anatomical data with electrode positions using
rigid-deformation-based correction of anatomical pictures. Overall, NeuroMap
provides substantial material for detailed spatiotemporal analysis of MEA
data.The package is distributed under GNU General Public License and
available at http://sites. google.com/site/neuromapsoftware.

Best wishes from Bordeaux,

Research Director
CNRS and Université de Bordeaux UMR 5287
The Aquitaine Institute for Cognitive and Integrative Neuroscience (INCIA)
PI Team 4: Neurotechnology and Network Dynamics
Batiment Biologie Animale B2
Avenue des facultés
Tel. +33 5 40 00 25 73
Fax. +33 5 40 00 25

- Bryan
1 512 203 0507
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