runDESeq {debrowser} | R Documentation

## runDESeq

### Description

Run DESeq2 algorithm on the selected conditions. Output is to be used for the interactive display.

### Usage

    runDESeq(data, columns, conds, fitType = c("parametric", "local", "mean"),
      non_expressed_cutoff = 10)

### Arguments

`data,` | A matrix that includes all the expression raw counts, rownames has to be the gene, isoform or region names/IDs
`columns,` | is a vector that includes the columns that are going to be analyzed. These columns has to match with the given data.
`conds,` | experimental conditions. The order has to match with the column order
`fitType,` | DESeq2 fitType, it can be 'parametric', 'local', 'mean'.
`non_expressed_cutoff,` | to remove unexpressed regions/genes/isoforms this cutoff is used

### Value

deseq2 results

### Examples

        x <- runDESeq(data<-NULL, columns<-c())

[Package debrowser version 1.6.8 Index]