fit.SmoothMultiarrayModel

SmoothMultiarrayModel.fit

fit,SmoothMultiarrayModel-method

A <code><a href="/link/data.frame?package=aroma.affymetrix&version=2.11.1&to=base" rd-options="base" data-mini-rdoc="base::data.frame">data.frame</a></code> with columns <code>M</code> (log-ratio) and
     <code>x</code> (locus position).

data

An <code><a href="/link/integer?package=aroma.affymetrix&version=2.11.1&to=base" rd-options="base" data-mini-rdoc="base::integer">integer</a></code> specifying the index of the chromosome to
     be fitted.

chromosome

Additional arguments passed down to the internal fit function.

See <code><a href="/link/Verbose?package=aroma.affymetrix&version=2.11.1&to=R.utils" rd-options="R.utils" data-mini-rdoc="R.utils::Verbose">Verbose</a></code>.

verbose

Fits the model for one chromosome across samples.

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 disk space that limits the number of arrays that can be analyzed.

fit.SmoothMultiarrayModel: Fits the model for one chromosome across samples

Description

Usage

Arguments

See Also