getResultsNames {RegEnrich} | R Documentation

## Inference the name of results of DESeq analysis by a formula (or model matrix) and sample information

### Description

Inference the name of results of DESeq analysis by a formula (or model matrix) and sample information

### Usage

    getResultsNames(design, pData = NULL)

### Arguments

`design` | either a formula or a model matrix.
`pData` | a data frame, showing the information of each sample. If design is a formula, the pData must be include the columns that identical to the terms of the design formula. If design is a model matrix, then pData is not used. Default is NULL.

### Value

the names of contrast parameter (list of character format) that `regenrich_diffExpr` and `results` function can use, and it is the same as the value that `resultsNames` function returns.

### Examples

    # formula with intercept
    design = ~condition
    pData = data.frame(condition = factor(c('A', 'A', 'A', 'B', 'B', 'B'),
                                          c('A', 'B')))
    getResultsNames(design, pData)

    # formula without intercept
    design = ~0+condition
    getResultsNames(design, pData)

    # formula with two terms
    design = ~condition+treatment
    pData = data.frame(condition = factor(rep(c('A', 'B'), each= 4),
                                          c('A', 'B')),
                       treatment = factor(rep_len(c('Ctrl', 'Treat'), 8),
                                          c('Ctrl', 'Treat')))
    getResultsNames(design, pData)

    # formula with two terms and an interaction term
    design = ~condition+treatment+condition:treatment
    getResultsNames(design, pData)

    # design is a model matrix
    pData = data.frame(condition = factor(rep(c('A', 'B'), each= 4),
                                          c('A', 'B')),
                       treatment = factor(rep_len(c('Ctrl', 'Treat'), 8),
                                          c('Ctrl', 'Treat')))
    design = model.matrix(~condition+treatment, pData)
    getResultsNames(design)

[Package RegEnrich version 1.2.0 Index]