nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data
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).
| Version: |
1.8.24 |
| Depends: |
R (≥ 2.15.1), rgl (≥ 0.98.1) |
| Imports: |
nabor, igraph (≥ 1.3.0), methods, filehash (≥ 2.3), digest, nat.utils (≥ 0.4.2), plyr, yaml |
| Suggests: |
Rvcg (≥ 0.17), testthat, httr, XML, knitr, rmarkdown, markdown, MASS, alphashape3d, webshot2 |
| Published: |
2024-02-05 |
| DOI: |
10.32614/CRAN.package.nat |
| Author: |
Gregory Jefferis 
[aut, cre],
James Manton
[aut],
Dominik Krzeminski
[ctb] |
| Maintainer: |
Gregory Jefferis <jefferis at gmail.com> |
| BugReports: |
https://github.com/natverse/nat/issues |
| License: |
GPL-3 |
| URL: |
https://github.com/natverse/nat, https://natverse.org/ |
| NeedsCompilation: |
no |
| Citation: |
nat citation info |
| Materials: |
README NEWS |
| CRAN checks: |
nat results |
Documentation:
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