This website accompanies the paper Neuron: Costa et al. (2016) NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases and preprint bioRxiv: Costa et al. (2014) NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases and acts as a hub for demonstrations of the core NBLAST algorithm (package nat.nblast), along with some features of the NeuroAnatomy Toolbox.
You can also contact Greg Jefferis at jefferis <at> mrc-lmb <dot> cam <dot> ac <dot> uk.
Software / data used
We used the Computational Morphometry Toolkit for image registration, particularly the munger script therein, using these scripts for template brain construction. Image processing and analysis was performed with a combination of Fiji/ImageJ and unu. Image registration and skeletonisation was coordinated using nat.as, with R being used for general analysis.
Preparing own data for use with NBLAST
Protocols for immunostaining and imaging fly brains, as well as registration of the resulting images are available from Cold Spring Harbor Protocols. We recommend the use of Simple Neurite Tracer for tracing neurons from the acquired images, detailed instructions for which are available from here.
Examples with datasets from other species
We have previously explored neuronal data from other species using NBLAST and have made these analyses available through our nat.examples R package. In particular, we have looked at monarch butterfly neurons from insectbraindb.org and the zebrafish olfactory projectome from Miyasaka et al. Olfactory projectome in the zebrafish forebrain revealed by genetic single-neuron labelling, Nature Communications.