jefferis/nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data
Version 1.8.12.9000

NeuroAnatomy Toolbox (nat) enables analysis and visualisation of 3D biological image data, especially traced neurons. Reads and writes 3D images in NRRD and 'Amira' AmiraMesh formats and reads surfaces in 'Amira' hxsurf format. Traced neurons can be imported from and written to SWC and 'Amira' LineSet and SkeletonGraph formats. These data can then be visualised in 3D via 'rgl', manipulated including applying calculated registrations, e.g. using the 'CMTK' registration suite, and analysed. There is also a simple representation for neurons that have been subjected to 3D skeletonisation but not formally traced; this allows morphological comparison between neurons including searches and clustering (via the 'nat.nblast' extension package).

Getting started

Package details

Maintainer
LicenseGPL-3
Version1.8.12.9000
URL https://github.com/jefferis/nat http://jefferislab.org
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("jefferis/nat")
jefferis/nat documentation built on May 21, 2018, 8:23 p.m.