bpmapToProbeAnno {Starr} | R Documentation

## Creating a probeAnno object

### Description

This function allows the user to create a probeAnno environment that holds the mapping between probes on the array and their genomic match position(s). The function takes an Affymetrix bpmap file as input.

### Usage

    bpmapToProbeAnno(bpmap, verbose=T, uniqueSeq=T)

### Arguments

`bpmap` | Either a list, created by the function readBpmap() from the affy package. Or a path to the bpmap file.
`verbose` | should the progress be printed out?
`uniqueSeq` | If TRUE, probes sequences that occur more than once on the chip (and consequently match several positions on the genome) are set to 1 in the probeAnno object. Unique probes are set to 0. If false, all probes are set to 0. To identify all unique and multiple matching probes, a remapping of the probes to the genome is recommended.

### Author(s)

Benedikt Zacher zacher@lmb.uni-muenchen.de

### Examples

    ##
    # dataPath <- system.file("extdata", package="Starr")
    # bpmapChr1 <- readBpmap(file.path(dataPath, "Scerevisiae_tlg_chr1.bpmap"))

    # probeAnnoChr1 <- bpmapToProbeAnno(bpmapChr1)

[Package Starr version 1.40.0 Index]