LRDataset {PhenStat} | R Documentation

## Method "LRDataset"

### Description

Prepares dataset for the LR framework - maps values of dependent variable to 0/1, where 1 is modeled.

### Usage

    LRDataset(
      phenList = NULL,
      depVariable = NULL,
      abnormalValues =
        c("abnormal", "Abnormal", "TRUE", "deviant"),
      outputMessages = TRUE
    )

### Arguments

`phenList` | instance of the `PhenList` class; mandatory argument
`depVariable` | a character string defining the dependent variable of interest; mandatory argument
`abnormalValues` | a list of abnormal values that will be mapped to 0; mandatory argument
`outputMessages` | flag: "FALSE" value to suppress output messages; "TRUE" value to show output messages; default value TRUE

### Value

Returns dataset suitable for LR framework, where provided abonormal values are mapped to 1 and all other values of dependent variable are assumed to be normal and are mapped to 0.

### 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.

### Examples

        file <- system.file("extdata", "testLR.csv", package="PhenStat")
        testLR <- PhenStat:::PhenList(dataset=read.csv(file,na.strings = '-'),
                testGenotype="Mock")
        testLR2 <- PhenStat:::LRDataset(testLR,"V2")

[Package PhenStat version 2.28.0 Index]