genesInArea


An object of class <code>data.frame</code> with gene or probe identifiers as
row names and the following columns: es (the enrichment score), chr (the
chromosome where the gene or probe belong to) and pos (position in the
chromosome in megabases).
It can be obtained with the function <code>getEsPositions</code>.



This is usually the output of <code>findCopyNumber</code> function.


regions


Combine the output of getEsPositions and findCopyNumber to see which
genes are in the enriched areas.<p></p><p>Given areas of enrichment (obtained with <code>findCopyNumber</code>) and a
set of genes or probes and their positions in the genome (obtained with
<code>getEsPositions</code>) the function tells which genes fall in each
area.
</p>

 ~kwd1 

Tools to test correlation between gene expression and
phenotype in a way that is efficient, structured, fast and
scalable. GSEA is also provided.

Evarist Planet

phenoTest

Tools to test association between gene expression and phenotype
in a way that is efficient, structured, fast and scalable. We
also provide tools to do GSEA (Gene set enrichment analysis)
and copy number variation.

genesInArea function

An object of class <code>data.frame</code> with gene or probe identifiers as
row names and the following columns: es (the enrichment score), chr (the
chromosome where the gene or probe belong to) and pos (position in the
chromosome in megabases).
It can be obtained with the function <code>getEsPositions</code>.

This is usually the output of <code>findCopyNumber</code> function.

Combine the output of getEsPositions and findCopyNumber to see which
genes are in the enriched areas.

Given areas of enrichment (obtained with <code>findCopyNumber</code>) and a
set of genes or probes and their positions in the genome (obtained with
<code>getEsPositions</code>) the function tells which genes fall in each
area.

genesInArea: Find genes that are in given areas.

Description

Usage

Arguments

See Also

Examples