extractMatrix.ParameterCelSet

ParameterCelSet.extractMatrix

extractMatrix,ParameterCelSet-method

(The subset of units to be matched.
    If <code><a href="/link/NULL?package=aroma.affymetrix&version=1.6.0&to=base" rd-options="base" data-mini-rdoc="base::NULL">NULL</a></code>, all units are considered.

units

Passed to <code><a href="/link/subset?package=aroma.affymetrix&version=1.6.0&to=base" rd-options="base" data-mini-rdoc="base::subset">subset</a></code>() operating on the UGC map.

field

If <code><a href="/link/TRUE?package=aroma.affymetrix&version=1.6.0&to=base%3Alogical" rd-options="base:logical" data-mini-rdoc="base:logical::TRUE">TRUE</a></code>, the (unit, group, cell) map is returned
    as an attribute.

returnUgcMap

If <code><a href="/link/TRUE?package=aroma.affymetrix&version=1.6.0&to=base%3Alogical" rd-options="base:logical" data-mini-rdoc="base:logical::TRUE">TRUE</a></code>, singleton dimensions are dropped.

drop

See <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

Extract data as a matrix for a set of arrays.

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.

extractMatrix.ParameterCelSet: Extract data as a matrix for a set of arrays

Description

Usage

Arguments

Value

See Also