Run Fisher tests in the sensitive and resistant groups using a categorical value — fisherCategoricalVariable • OrganoidsToolBox

The function run Fisher test in the sensitive and resistant groups using a categorical value. TODO

fisherCategoricalVariable(drugQuantile, category)

Arguments

drugQuantile: an object of class "DrugAUCQuantile" which contains the sensitive and resistant organoids for a specific drug.
category: a single character string representing the column from the "DrugAUCQuantile" extreme dataset that should be used as the categorical variable.

Value

a list containing 2 components:

Fisher TODO
tablea data.frame TODO

Author

Astrid Deschênes, Pascal Belleau

Examples


## Load drug screen dataset and patient information for methotrexate
data(drugScreeningMethoSet)
data(patientInfoMethoSet)

## Retain unreplicated samples
cleanData <- selectNoReplicateOrganoids(drugScreening=drugScreeningMethoSet,
    patientInfo=patientInfoMethoSet)

## Calculate the extreme organoids for the methotrexate drug screening
## using a quantile of 1/3
results <- getClassOneDrug(drugScreening=cleanData,
    drugName="Methotrexate", study="MEGA-TEST", screenType="TEST-01",
    doseType="Averaged", quantile=1/3)

## Fisher test on ancestry
fisherT <- fisherCategoricalVariable(drugQuantile=results,
    category="ancestry")