make.gal.env {ExiMiR} | R Documentation

## GAL Environment Maker

### Description

Reads an Exiqon GAL file and creates an annotation environment used as a hash table for the probeset mapping location.

### Usage

    make.gal.env(galname=NULL,
                 filename=NULL,
                 gal.path=getwd(),
                 verbose=FALSE)

### Arguments

`galname` | Character vector. Name to be used for the annotation environment.
`filename` | Character vector. Name of the GAL file.
`gal.path` | Character vector. Path to the GAL file.
`verbose` | Logical. The default value is `TRUE`. The details of the function execution are displayed on the console.

### Details

This function is designed similarly to `make.cdf.env` from the `makecdfenv` package. If no filename is provided as argument, the function tries to read the first GAL file in the input path. The returned environment is a hash table. For every probeset name we have a matrix with 2 columns. The first column contains the PM locations and the second column the MM locations. For PM only chips the MM column will have NAs.

### Value

None.

### Author(s)

Sylvain Gubian, Alain Sewer, PMP SA

### Examples

    # The folder 'Exiqon' contains a GAL file
    ## Not run: make.gal.env(galname='galenv', gal.path='Exiqon')

[Package ExiMiR version 2.22.0 Index]