samplePointMatrix-class

show,samplePointMatrix-method

	A sample point matrix resulting from a call to calcSpm

classes

Multi sample aCGH analysis package using kernel
convolution

Jorma de Ronde

KCsmart

Multi sample aCGH analysis package using kernel convolution

samplePointMatrix-class function

Objects can not be created by the user directly but rather through calcSpm.

Objects from the Class

<dl>
    <dt><code>totalLength</code>:</dt><dd> The total length of the sample point matrix, measures in sample points</dd> <dt><code>maxy</code>:</dt><dd>The maximum KC score attained over the sample point matrix </dd> <dt><code>miny</code>:</dt><dd>The minimum KC score attained over the sample point matrix </dd> <dt><code>sampleDensity</code>:</dt><dd>The sample density used to calculate the sample point matrix. ie the distance between two points in the sample point matrix, measured in base pairs. </dd> <dt><code>sigma</code>:</dt><dd>The sigma used for the kernel to calculate the sample point matrix.</dd> <dt><code>mirrorLocs</code>:</dt><dd>The mirror locations list used to calculate the sample point matrix</dd> <dt><code>probeAnnotation</code>:</dt><dd>The original probe annotation from the input data.</dd> <dt><code>data</code>:</dt><dd>The sample point matrix data points in the form of a list where each list element represents a chromosome.</dd> </dl> 

Slots

<dl>
    <dt>plot</dt><dd><code>signature(x = "samplePointMatrix")</code>: ... </dd> <dt>show</dt><dd><code>signature(object = "samplePointMatrix")</code>: ... </dd> </dl> 

Methods

A sample point matrix resulting from a call to calcSpm

samplePointMatrix-class: Sample point matrix

Description

Arguments

Objects from the Class

Slots

Methods

Examples