fromDataFile.ChipEffectFile

ChipEffectFile.fromDataFile

fromDataFile,ChipEffectFile-method

static

filename

The path to the directory where to find/create the CEL file.

path

The name of the array to be stored in the CEL header.

name

The template <code><a href="/link/AffymetrixCdfFile?package=aroma.affymetrix&version=2.2.0" rd-options="" data-mini-rdoc="aroma.affymetrix::AffymetrixCdfFile">AffymetrixCdfFile</a></code> used for creating
             a CEL file from scratch.

Passed to <code><a href="/link/createCel?package=aroma.affymetrix&version=2.2.0&to=affxparser" rd-options="affxparser" data-mini-rdoc="affxparser::createCel">createCel</a></code>.

See <code><a href="/link/Verbose?package=aroma.affymetrix&version=2.2.0&to=R.utils" rd-options="R.utils" data-mini-rdoc="R.utils::Verbose">Verbose</a></code>.

verbose

Retrive an existing CEL file, or create from CDF template if missing.

methods

internal

This package implements classes for files and sets of
        files for various Affymetrix file formats, e.g.
        AffymetrixCdfFile, AffymetrixCelFile, and AffymetrixCelSet.
        These are designed to be memory efficient but still being fast.
        The idea is to keep all data on file and only read data into
        memory when needed.  Clever caching mechanisms are used to
        minimize the overhead of data IO.  All of the above is hidden
        in the package API and for the developer (and the end user),
        the data is queried as if it lives in memory.  With this design
        it is only the diskspace that limits the number of arrays that
        can be analyzed.  To install, do:
        source("http://www.aroma-project.org/hbLite.R");
        hbInstall("aroma.affymetrix").

Henrik Bengtsson

aroma.affymetrix

Analysis of large Affymetrix microarray data sets

fromDataFile.ChipEffectFile function

fromDataFile.ChipEffectFile(static, df=NULL, filename=sprintf("%s,chipEffects.CEL", getFullName(df)), path, name=getName(df), cdf=NULL, ..., verbose=FALSE)

fromDataFile.ChipEffectFile: Retrive an existing CEL file, or create from CDF template if missing

Description

Usage

Arguments

Value

synopsis

See Also