growthPheno

Plotting, Smoothing and Growth Trait Extraction for Longitudinal Data

Assists in producing longitudinal or profile plots of measured traits. These allow checks to be made for anomalous data and growth patterns in the data to be explored. Smoothing of growth trends for individual plants using smoothing splines is available for removing transient effects. There are tools for diagnosing the adequacy of trait smoothing, either using this package or other packages, such as those that fit nonlinear growth models. A range of per-unit (pot, plant, plot) growth traits can be extracted from longitudinal data, including single time-point smoothed trait values and their growth rates, interval growth rates and other growth statistics, such as maximum growth. The package is particularly suited to preparing data from high-throughput phenotyping facilities, such as imaging data from a Lemna-Tec Scananalyzer (see <http://www.lemnatec.com/products/hardware-solutions/scanalyzer-3d> for more information). The package 'growthPheno' can also be installed from <http://chris.brien.name/rpackages/>.

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Description file content

Package
growthPheno
Version
1.0-15
Date
2019-07-11
Title
Plotting, Smoothing and Growth Trait Extraction for Longitudinal Data
Depends
R (>= 3.5.0)
Imports
dae, ggplot2, stats, XLConnect, Hmisc, GGally, RColorBrewer, reshape, grid
Suggests
testthat, R.rsp
VignetteBuilder
R.rsp
Description
Assists in producing longitudinal or profile plots of measured traits. These allow checks to be made for anomalous data and growth patterns in the data to be explored. Smoothing of growth trends for individual plants using smoothing splines is available for removing transient effects. There are tools for diagnosing the adequacy of trait smoothing, either using this package or other packages, such as those that fit nonlinear growth models. A range of per-unit (pot, plant, plot) growth traits can be extracted from longitudinal data, including single time-point smoothed trait values and their growth rates, interval growth rates and other growth statistics, such as maximum growth. The package is particularly suited to preparing data from high-throughput phenotyping facilities, such as imaging data from a Lemna-Tec Scananalyzer (see for more information). The package 'growthPheno' can also be installed from .
License
GPL (>= 2)
URL
RoxygenNote
5.0.1
NeedsCompilation
no
Packaged
2019-07-15 05:29:23 UTC; briencj
Author
Chris Brien [aut, cre] ()
Maintainer
Chris Brien
Repository
CRAN
Date/Publication
2019-07-15 08:10:02 UTC

install.packages('growthPheno')

1.0-15

a month ago

http://chris.brien.name

Chris Brien

GPL (>= 2)

Depends on

R (>= 3.5.0)

Imports

dae, ggplot2, stats, XLConnect, Hmisc, GGally, RColorBrewer, reshape, grid

Suggests

testthat, R.rsp

Discussions