ScoreMatrix-class

The resulting object is an extension of a <code>matrix</code> object, and stores values (typically genome-wide scores) for a predefined set of regions
Each row on the ScoreMatrix is a predefined region (Ex: CpG islands, promoters) and columns are values across those regions.

A package for summary and annotation of genomic intervals. Users can visualize and 
	quantify genomic intervals over pre-defined functional regions, such as promoters, exons, 
	introns, etc. The genomic intervals represent regions with a defined chromosome position,
	which may be associated with a score, such as aligned reads from HT-seq experiments, TF binding sites, 
	methylation scores, etc. The package can use any tabular genomic feature data as long as it has minimal 
	information on the locations of genomic intervals. In addition, It can use BAM or BigWig files as input.

Altuna Akalin

genomation

Summary, annotation and visualization of genomic data

ScoreMatrix-class function

see <code><a href="/link/ScoreMatrix?package=genomation&version=1.4.2" rd-options="" data-mini-rdoc="genomation::ScoreMatrix">ScoreMatrix</a></code>

Constructors

as(from, "matrix"): Creates a matrix from <code>ScoreMatrix</code> object. You can also use S3Part() function to extract the matrix from <code>ScoreMatrix</code> object.

Coercion

In the code snippets below, x is a ScoreMatrix object.
<code>'x[i,j]'</code>: Get or set elements from row <code>i</code> and column <code>j</code> and return a subset ScoreMatrix object.

ScoreMatrix-class: An S4 class for storing `ScoreMatrix` function results

Description

Arguments

Constructors

Coercion

Subsetting

See Also