TFDataset {PhenStat} | R Documentation

## Method "TFDataset"

### Description

Removes of all non-concurrent batches from the dataset. Returns dataset suitable for TF framework or original dataset if data removal was not successful.

### Usage

        TFDataset(phenList,
              depVariable,
              outputMessages  = TRUE,
              forDecisionTree = FALSE,
              upper           = 5)

### Arguments

`phenList` | instance of the `PhenList` class; mandatory argument
`depVariable` | a character string defining the dependent variable of interest; mandatory argument
`outputMessages` | flag: "FALSE" value to suppress output messages; "TRUE" value to show output messages; default value TRUE
`forDecisionTree` | flag: "FALSE" value for normal procedure; "TRUE" value to indicate that is called form decisionTree function; default value FALSE
`upper` | Single integer: maximum allowed number of levels for the Batch in the TF framework. Default 5.

### Value

Returns dataset suitable for TF framework or original dataset if data removal was not successful.

### Author(s)

Natalja Kurbatova, Natasha Karp, Jeremy Mason

### References

Karp N, Melvin D, Sanger Mouse Genetics Project, Mott R (2012): Robust and Sensitive Analysis of Mouse Knockout Phenotypes. PLoS ONE 7(12): e52410. doi:10.1371/journal.pone.0052410

West B, Welch K, Galecki A (2007): Linear Mixed Models: A practical guide using statistical software New York: Chapman & Hall/CRC 353 p.

### See Also

`PhenList`

### Examples

        file <- system.file("extdata", "test1.csv", package="PhenStat")
        test <- PhenStat:::PhenList(dataset=read.csv(file,na.strings = '-'),
                testGenotype="Sparc/Sparc")
        test2 <- PhenStat:::TFDataset(test,"Lean.Mass")

[Package PhenStat version 2.26.0 Index]