gene.annot

Genomic position and cytoband annotation data.

datasets

Pearson and Spearman correlation coefficients are commonly used to quantify the strength
of bivariate associations of genomic variables. For example, correlations of gene-level
DNA copy number and gene expression measurements may be used to assess the impact of
DNA copy number changes on gene expression in tumor tissue. 'MVisAGe' enables users to
quickly compute and visualize the correlations in order to assess the effect of regional
genomic events such as changes in DNA copy number or DNA methylation level. Please see
Walter V, Du Y, Danilova L, Hayward MC, Hayes DN, 2018. Cancer Research
<doi:10.1158/0008-5472.CAN-17-3464>.

Vonn Walter

MVisAGe

Compute and Visualize Bivariate Associations

gene.annot function

A matrix with 26417 rows and 3 columns<dl class="dl-horizontal">
<dt>chr</dt><dd>chromosome containing the gene of interest</dd>
<dt>pos</dt><dd>genomic position (base pairs) for the gene of interest</dd>
<dt>cytoband</dt><dd>cytoband containing the gene of interest</dd>
<dt>Row names</dt><dd>gene symbols</dd>
</dl>

Format

Gene annotation data (hg38) — gene.annot

A matrix with 26417 rows and 3 columns<dl class='dl-horizontal'>
<dt>chr</dt><dd>chromosome containing the gene of interest</dd>
<dt>pos</dt><dd>genomic position (base pairs) for the gene of interest</dd>
<dt>cytoband</dt><dd>cytoband containing the gene of interest</dd>
<dt>Row names</dt><dd>gene symbols</dd>
</dl>

gene.annot: Gene annotation data (hg38)

Description

Usage

Arguments

Format