RCircos.Ribbon.Data

A data frame containing paired genomic position data for each row. The contents of each row are in the order of name, start and end positions of chromosome A then name, start and end positions of chromosome B. This data frame is directly used to draw ribbons without extra processing.

datasets

A simple and flexible way to generate Circos 2D track plot images for genomic data visualization is implemented in this package. The types of plots include: heatmap, histogram, lines, scatterplot, tiles and plot items for further decorations include connector, link (lines and ribbons), and text (gene) label. All functions require only R graphics package that comes with R base installation.

Hongen Zhang

RCircos

Circos 2D Track Plot

RCircos.Ribbon.Data function

A data frame with 4 observations on the following 6 variables.<dl class="dl-horizontal">
 <dt><code>chromA</code></dt><dd>a factor with levels <code>chr1</code> <code>chr5</code> <code>chr8</code></dd>
 <dt><code>chromStartA</code></dt><dd>a numeric vector</dd>
 <dt><code>chromEndA</code></dt><dd>a numeric vector</dd>
 <dt><code>chromB</code></dt><dd>a factor with levels <code>chr10</code> <code>chr13</code> <code>chr17</code> <code>chr18</code></dd>
 <dt><code>chromStartB</code></dt><dd>a numeric vector</dd>
 <dt><code>chromEndB</code></dt><dd>a numeric vector</dd>
 </dl>

Format

Sample Data for RCircos Ribbon Plot — RCircos.Ribbon.Data

A data frame with 4 observations on the following 6 variables.<dl class='dl-horizontal'>
 <dt><code>chromA</code></dt><dd>a factor with levels <code>chr1</code> <code>chr5</code> <code>chr8</code></dd>
 <dt><code>chromStartA</code></dt><dd>a numeric vector</dd>
 <dt><code>chromEndA</code></dt><dd>a numeric vector</dd>
 <dt><code>chromB</code></dt><dd>a factor with levels <code>chr10</code> <code>chr13</code> <code>chr17</code> <code>chr18</code></dd>
 <dt><code>chromStartB</code></dt><dd>a numeric vector</dd>
 <dt><code>chromEndB</code></dt><dd>a numeric vector</dd>
 </dl>

RCircos.Ribbon.Data: Sample Data for RCircos Ribbon Plot

Description

Usage

Arguments

Format