cumulate

Uses <code>cumsum</code> to calculate the cumulative sum, ignoring the first element 
 if exclude.1st is <code>TRUE</code>.

manip

data

Assists in the plotting and functional smoothing of traits
measured over time and the extraction of features from these traits,
implementing the SET (Smoothing and Extraction of Traits) method
described in Brien et al. (2020) Plant Methods, 16. Smoothing of
growth trends for individual plants using natural cubic smoothing
splines or P-splines is available for removing transient effects and
segmented smoothing is available to deal with discontinuities in
growth trends. There are graphical tools for assessing the adequacy
of trait smoothing, both when using this and other packages, such as
those that fit nonlinear growth models. A range of per-unit (plant,
pot, plot) growth traits or features can be extracted from the
data, including single time points, interval growth rates and other
growth statistics, such as maximum growth or days to maximum growth.
The package also has tools adapted to inputting data from
high-throughput phenotyping facilities, such from a Lemna-Tec
Scananalyzer 3D (see <https://www.youtube.com/watch?v=MRAF_mAEa7E/>
for more information). The package 'growthPheno' can also be
installed from <http://chris.brien.name/rpackages/>.

Chris Brien

growthPheno

Functional Analysis of Phenotypic Growth Data to Smooth and
Extract Traits

cumulate function

<dl> <dt>x</dt>
<dd>A <code><a href="/link/vector?package=growthPheno&version=2.1.23" data-mini-rdoc="growthPheno::vector">vector</a></code> containing the values to be cumulated.</dd> <dt>exclude.1st</dt>
<dd>A <code><a href="/link/logical?package=growthPheno&version=2.1.23" data-mini-rdoc="growthPheno::logical">logical</a></code> indicating whether or not the first value of 
 the cumulative sum is to be <code>NA</code>.</dd> <dt>na.rm</dt>
<dd>A <code><a href="/link/logical?package=growthPheno&version=2.1.23" data-mini-rdoc="growthPheno::logical">logical</a></code> indicating whether <code>NA</code> values should be 
 stripped before the computation proceeds</dd> <dt>...</dt>
<dd>allows passing of arguments to other functions; not used at present.</dd></dl>

Arguments

Author

Calculates the cumulative sum, ignoring the first element if exclude.1st is TRUE — cumulate

<dl>

 <dt>x</dt>
<dd>A <code><a href='https://rdrr.io/r/base/vector.html'>vector</a></code> containing the values to be cumulated.</dd>

 <dt>exclude.1st</dt>
<dd>A <code><a href='https://rdrr.io/r/base/logical.html'>logical</a></code> indicating whether or not the first value of 
 the cumulative sum is to be <code>NA</code>.</dd>

 <dt>na.rm</dt>
<dd>A <code><a href='https://rdrr.io/r/base/logical.html'>logical</a></code> indicating whether <code>NA</code> values should be 
 stripped before the computation proceeds</dd>

 <dt>...</dt>
<dd>allows passing of arguments to other functions; not used at present.</dd>

</dl>

cumulate: Calculates the cumulative sum, ignoring the first element if exclude.1st is TRUE

Description

Usage

Value

Arguments

Author

See Also

Examples