readSpotTypes {limma} | R Documentation

## Read Spot Types File

### Description

Read a table giving regular expressions to identify different types of spots in the gene-dataframe.

### Usage

    readSpotTypes(file="SpotTypes.txt",path=NULL,sep="\t",check.names=FALSE,...)

### Arguments

`file` | character string giving the name of the file specifying the spot types.
`path` | character string giving the directory containing the file. Can be omitted if the file is in the current working irectory.
`sep` | the field separator character
`check.names` | logical, if `FALSE` column names will not be converted to valid variable names, for example spaces in column names will not be left as is
`...` | any other arguments are passed to `read.table`

### Details

The file is a text file with rows corresponding to types of spots and the following columns: `SpotType` gives the name for the spot type, `ID` is a regular expression matching the ID column, `Name` is a regular expression matching the Name column, and `Color` is the R name for the color to be associated with this type.

### Value

A data frame with columns

`SpotType` | character vector giving names of the spot types
`ID` | character vector giving regular expressions
`Name` | character vector giving regular expressions
`Color` | character vector giving names of colors

### Author(s)

Gordon Smyth following idea of James Wettenhall

### See Also

An overview of LIMMA functions for reading data is given in 03.ReadingData.

[Package limma version 2.2.0 Index]