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          Institute: MPI für molekulare Zellbiologie und Genetik     Collection: MPI-CBG Publications 2012-arch     Display Documents



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ID: 645213.0, MPI für molekulare Zellbiologie und Genetik / MPI-CBG Publications 2012-arch
TrakEM2 Software for Neural Circuit Reconstruction.
Authors:Cardona, Albert; Saalfeld, Stephan; Schindelin, Johannes; Arganda-Carreras, Ignacio; Preibisch, Stephan W.; Longair, Mark; Tomancak, Pavel; Hartenstein, Volker; Douglas, Rodney J
Date of Publication (YYYY-MM-DD):2012
Title of Journal:PLoS ONE
Volume:7
Issue / Number:6
Sequence Number of Article:e38011
Copyright:not available
Audience:Experts Only
Intended Educational Use:No
Abstract / Description:A key challenge in neuroscience is the expeditious reconstruction of neuronal circuits. For model systems such as Drosophila and C. elegans, the limiting step is no longer the acquisition of imagery but the extraction of the circuit from images. For this purpose, we designed a software application, TrakEM2, that addresses the systematic reconstruction of neuronal circuits from large electron microscopical and optical image volumes. We address the challenges of image volume composition from individual, deformed images; of the reconstruction of neuronal arbors and annotation of synapses with fast manual and semi-automatic methods; and the management of large collections of both images and annotations. The output is a neural circuit of 3d arbors and synapses, encoded in NeuroML and other formats, ready for analysis.
External Publication Status:published
Document Type:Article
Version Comment:Automatic journal name synchronization
Communicated by:nn
Affiliations:MPI für molekulare Zellbiologie und Genetik
Identifiers:LOCALID:4851
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