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imageData (version 0.1-21)

Aids in Processing and Plotting Data from a Lemna-Tec Scananalyzer

Description

Extracts traits from imaging data produced using a Lemna-Tec Scananalyzer. Growth rates are between successive imagings are obtained and those for a nominated set of intervals can also be calculated. Profile or longitudinal plots of the traits and growth rates can be produced.

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Version

Install

install.packages('imageData')

Monthly Downloads

220

Version

0.1-21

License

GPL (>= 2)

Maintainer

Chris Brien

Last Published

May 16th, 2016

Functions in imageData (0.1-21)

Produce the fits from a natural cubic smoothing spline applied to a response in a data.frame

Plots longitudinal data from a Lemna Tec Scananalyzer

Tests if any values in a vector are anomalous in being outside specified limits

Adds the fits after fitting a natural cubic smoothing spline to subsets of a response to a data.frame

Imports an Excel imaging file and allows some renaming of variables

Replaces the values in a vector with the result of applying an operation to it and a lagged value

intervalValueCalculate

Calculates a single value that is a function of an individual's values for a response over a specified time interval

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

Selects a subset of variables using Principal Variable Analysis (PVA)

Adds the factors and covariates for a blocked, split-plot design

Forms a subset of responses in data that contains their values for the nominated times

Compares, for a set of specified values of df, a response and the smooths of it, possibly along with growth rates calculated from the smooths

Selects a subset of variables observed within a specified time interval using Principal Variable Analysis (PVA)

Calculates growth rates (AGR, PGR, RGRdiff) between pairs of values in a vector

splitValueCalculate

Calculates a single value that is a function of an individual's values for a response

intervalGRaverage

Calculates the growth rates for a specified time interval by taking weighted averages of growth rates for times within the interval

Data for an experiment to investigate a rice germplasm panel

Calculates and plots correlation matrices for a set of responses

A small data set to use in function examples

Calculates the growth rates for a specified time interval

Calculates water use indices (WUI) over a specified time interval to a data.frame

twoLevelOpcreate

Creates a data.frame formed by applying, for each response, a binary operation to the paired values of two different treatments

Plots the hour of the day carts are imaged against the days after planting (or some other number of days after an event)

longitudinalPrime

Selects a set variables to be retained in a data frame of longitudinal data

splitContGRdiff

Adds the growth rates calculated continuously over time for subsets of a response to a data.frame

Calculates the Water Use Index (WUI)

Computes a measure of how correlated each variable in a set is with the other variable, conditional on a nominated subset of them

Identifies anomalous individuals and produces longitudinal plots without them and with just them