nTracer

nTracer is an image processing plugin for ImageJ/Fiji which allows

Please cite:

Multispectral tracing in densely labeled mouse brain with nTracer.

Roossien DH, Sadis BV*, Yan Y*, Webb JM*, Min LY, Dizaji AS, Bogart LJ, Mazuski C, Huth RS, Stecher JS, Akula S, Shen F, Xiao T, Vandenbrink M, Lichtman JW, Hensch TK, Herzog ED, Cai D Bioinformatics 2019;btz084

The distribution of Brainbow and nTracer is partially supported by an NSF grant. Please register as a user and acknowledge "NSF-1707316 NeuroNex MINT" in your future publications that use Brainbow and nTracer.


March 12, 2020: nTracer1.3.5 Changelog

  • Buffered virtual stack implementation (allows 200Gb image to be opened on <8Gb of memory)

  • Support for ROI manager in nTracer views

  • Backend performance improvements in trace rendering and maximum projection (traces load x10 faster)

  • Support for visualization of imported ROIs


<imagescience.jar> is required for <AlignMaster>. Download from HERE if it is not in "ImageJ/jars" folder

Download Links

nTracer Supplemental Training Videos

Tracing Somas


Tracing Neuronal Spines

Tracing Neurites


Identifying Synapses