createUniqueCdf.AffymetrixCdfFile

AffymetrixCdfFile.createUniqueCdf

createUniqueCdf,AffymetrixCdfFile-method

AffymetrixCdfFile.createUnique

createUnique.AffymetrixCdfFile

createUnique,AffymetrixCdfFile-method

chipType

Tags added to the chip type of the new CDF.

path

Additional arguments passed to <code><a href="/link/writeCdf?package=aroma.affymetrix&version=1.6.0&to=affxparser" rd-options="affxparser" data-mini-rdoc="affxparser::writeCdf">writeCdf</a></code>.

A <code><a href="/link/double?package=aroma.affymetrix&version=1.6.0&to=base" rd-options="base" data-mini-rdoc="base::double">double</a></code> saying if more or less units should be converted
     per chunk.  A smaller value uses less memory.

A <code><a href="/link/logical?package=aroma.affymetrix&version=1.6.0&to=base" rd-options="base" data-mini-rdoc="base::logical">logical</a></code> or <code><a href="/link/Verbose?package=aroma.affymetrix&version=1.6.0&to=R.utils" rd-options="R.utils" data-mini-rdoc="R.utils::Verbose">Verbose</a></code>.

verbose

In some cases, single probes map to multiple genome locations.  In cases
 where you may later want to store a probe estimate (e.g. a probe effect
 or a residual), you will not be able to store more than one per cell.
 The unique CDF facilitates this by making the cell indices unique
 (essentially copying the multimapping probes).

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.

createUniqueCdf.AffymetrixCdfFile: Creates a unique-cell version of the CDF

Description

Usage

Arguments

Value

See Also