geneAnno


A CDS gene annotation file with the following column names (obtained for human reference)
 <ul>
<li> chrom. Chromosome number
  </li>
<li> strand. Positive or negative strand
  </li>
<li> cdsStart. CDS Start position
  </li>
<li> cdsEnd. CDS end position
  </li>
<li> GeneID. Gene symbol
  </li>
</ul><p></p><p>  More details on how this object was created is provided in the vignette titled "How to prepare Input data" in the CINdex package.
</p>

datasets

The CINdex package addresses important area of high-throughput
genomic analysis. It allows the automated processing and analysis of the
experimental DNA copy number data generated by Affymetrix SNP 6.0 arrays or
similar high throughput technologies. It calculates the chromosome instability
(CIN) index that allows to quantitatively characterize genome-wide DNA copy
number alterations as a measure of chromosomal instability. This package
calculates not only overall genomic instability, but also instability in terms
of copy number gains and losses separately at the chromosome and cytoband level.

Yuriy Gusev

CINdex

Chromosome Instability Index

geneAnno function

Format

A CDS gene annotation file with the following column names (obtained for human reference)
 <ul><li>chrom. Chromosome number</li><li>strand. Positive or negative strand</li><li>cdsStart. CDS Start position</li><li>cdsEnd. CDS end position</li><li>GeneID. Gene symbol</li></ul>
  More details on how this object was created is provided in the vignette titled "How to prepare Input data" in the CINdex package.

geneAnno: CDS gene annotation file

Description

Usage

Arguments

Value

Format