vectorOutputMatrices: Method "vectorOutputMatrices"
In PhenStat: Statistical analysis of phenotypic data

Description Usage Arguments Value Author(s) References See Also Examples

Returns count matrices from Fisher Exact Test framework in a vector form.

Note: Maximal supported number of dependent variable levels is 10.

1	vectorOutputMatrices(phenTestResult,outputMessages=TRUE)

`phenTestResult`	instance of the `PhenTestResult` class that comes from the function `testDataset`; mandatory argument
`outputMessages`	flag: "FALSE" value to suppress output messages; "TRUE" value to show output messages; default value TRUE

Returns a vector with count values.

Natalja Kurbatova, Natasha Karp, Jeremy Mason

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.

PhenTestResult

    file <- system.file("extdata", "test_categorical.csv", package="PhenStat")
    test <- PhenStat:::PhenList(dataset=read.csv(file,na.strings = '-'),
            testGenotype="Aff3/Aff3")
    result <- PhenStat:::testDataset(test,
            depVariable="Thoracic.Processes",
            method="FE")  
    PhenStat:::vectorOutputMatrices(result)