getProbeData_1lq: Read a 1lq file for an Affymetrix genechip

In Bioconductor/AnnotationForge: Tools for building SQLite-based annotation data packages

Read a 1lq file for an Affymetrix genechip

Description

Read a 1lq file for an Affymetrix genechip

Usage

getProbeData_1lq(arraytype, datafile, pkgname = NULL)

Arguments

arraytype	Character. Array type (e.g. 'Scerevisiaetiling)
datafile	Character. The filename of the input data file. If omitted a default name is constructed from arraytype (see this function's source code).
pkgname	Character. Package name. If NULL the name is derived from arraytype.

Details

This function serves as an interface between the (1) representation of array probe information data in the packages that are generated by makeProbePackage and (2) the vendor- and possibly version-specific way the data are represented in datafile.

Value

A list with three components

dataEnv	an environment which contains the data frame with the probe sequences and the other probe data.
symVal	a named list of symbol value substitutions which can be used to customize the man pages. See createPackage.
pkgname	a character with the package name; will be the same as the function parameter pkgname if it was specified; otherwise, the name is constructed from the parameter arraytype.

See Also

makeProbePackage

Examples

## makeProbePackage(
##    arraytype = "Scerevisiaetiling",
##    maintainer= "Wolfgang Huber <[e-mail]>",
##    version   = "1.1.0",
##    datafile  = "S.cerevisiae_tiling.1lq",
##    importfun = "getProbeData_1lq")

Bioconductor/AnnotationForge documentation built on Nov. 2, 2024, 6:30 a.m.