geneDrugPerturbation {ToxicoGx} | R Documentation

## Compute gene-drug associations

### Description

Function computing gene-drug associations from perturbation data

### Usage

    geneDrugPerturbation(x, concentration, type, batch, duration, model = FALSE)

### Arguments

`x` | [numeric] Vector of gene expression values
`concentration` | [numeric] Vector with drug concentrations/doses
`type` | [factor] Vector of factors specifying the cell lines or type types
`batch` | [factor] Vector of factors specifying the batch
`duration` | [character] Vector of measurement times (in hours)
`model` | [logical] Should the full linear model be returned? Default set to FALSE

### Value

[numeric] Vector reporting the effect size (estimateof the coefficient of drug concentration), standard error (se), sample size (n), t statistic, and F statistics and its corresponding p-value

### Examples

    ToxicoGx::drugPerturbationSig(tSet = TGGATESsmall,
      mDataType="rna",
      cell_lines="Hepatocyte",
      duration="24",
      dose=c("Control", "Low"),
      drugs=c("Omeprazole", "Isoniazid"),
      returnValues=c("estimate","tstat", "pvalue", "fdr"),
      verbose=FALSE)

[Package ToxicoGx version 1.0.1 Index]