Package: nat
Type: Package
Title: nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data
Version: 1.4.10
Date: 2013-04-29
Author: Greg Jefferis and James Manton
Maintainer: Greg Jefferis <jefferis@gmail.com>
URL: https://github.com/jefferis/nat http://jefferislab.org
Description: This package is a reboot of the AnalysisSuite
(https://github.com/jefferis/AnalysisSuite) bundle of R code that I have
been using for a number of years to analyse and visualise 3D biological
image data, especially traced neurons. AnalysisSuite is most easily
installed using the nat.as package presently available at
https://github.com/jefferis/nat.as. The nat package is considerably cleaner
but currently provides only a subset of the full functionality of nat.as /
AnalysisSuite. nat can read and write 3D images in NRRD and Amira formats
and read surfaces in Amira's 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. The package also has a simple representation for neurons that
have been subjected to a 3D skeletonisation but not formally traced; this
allows morphological comparison between neurons including searches and
clustering.
Depends: R (>= 2.15.1), rgl
Imports: RANN, igraph, methods, filehash, digest, nat.utils
Suggests: testthat
License: GPL-3
LazyData: yes
Packaged: 2014-04-30 02:19:49 UTC; jefferis
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-04-30 07:49:42

Package: nat
Type: Package
Title: nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data
Version: 1.4.5
Date: 2013-03-27
Author: Greg Jefferis with contributions from Ashley Manton
Maintainer: Greg Jefferis <jefferis@gmail.com>
URL: https://github.com/jefferis/nat http://jefferislab.org
Description: This package is a reboot of the AnalysisSuite
(https://github.com/jefferis/AnalysisSuite) bundle of R code that I have
been using for a number of years to analyse and visualise 3D biological
image data, especially traced neurons. AnalysisSuite is most easily
installed using the nat.as package presently available at
https://github.com/jefferis/nat.as. The nat package is considerably cleaner
but currently provides only a subset of the full functionality of nat.as /
AnalysisSuite. nat can read and write 3D images in NRRD and Amira formats
and read surfaces in Amira's 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. The package also has a simple representation for neurons that
have been subjected to a 3D skeletonisation but not formally traced; this
allows morphological comparison between neurons including searches and
clustering.
Depends: R (>= 2.15.1), rgl
Imports: RANN, igraph, methods, filehash, digest, nat.utils
Suggests: testthat
License: GPL-3
LazyData: yes
Packaged: 2014-03-28 14:11:55 UTC; jefferis
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-28 16:12:46