Multispectral tracing in densely labeled mouse brain with nTracer

Abstract Summary This note describes nTracer, an ImageJ plug-in for user-guided, semi-automated tracing of multispectral fluorescent tissue samples. This approach allows for rapid and accurate reconstruction of whole cell morphology of large neuronal populations in densely labeled brains. Availabili...

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Published in:Bioinformatics 2019-09, Vol.35 (18), p.3544-3546
Main Authors: Roossien, Douglas H, Sadis, Benjamin V, Yan, Yan, Webb, John M, Min, Lia Y, Dizaji, Aslan S, Bogart, Luke J, Mazuski, Cristina, Huth, Robert S, Stecher, Johanna S, Akula, Sriakhila, Shen, Fred, Li, Ye, Xiao, Tingxin, Vandenbrink, Madeleine, Lichtman, Jeff W, Hensch, Takao K, Herzog, Erik D, Cai, Dawen
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Language:English
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Summary:Abstract Summary This note describes nTracer, an ImageJ plug-in for user-guided, semi-automated tracing of multispectral fluorescent tissue samples. This approach allows for rapid and accurate reconstruction of whole cell morphology of large neuronal populations in densely labeled brains. Availability and implementation nTracer was written as a plug-in for the open source image processing software ImageJ. The software, instructional documentation, tutorial videos, sample image and sample tracing results are available at https://www.cai-lab.org/ntracer-tutorial. Supplementary information Supplementary data are available at Bioinformatics online.
ISSN:1367-4803
1460-2059
1367-4811
DOI:10.1093/bioinformatics/btz084