rainfallTransform

Calculate inter-distance of genomic regions

Circular layout is an efficient way for the visualization of huge
amounts of information. Here this package provides an implementation
of circular layout generation in R as well as an enhancement of available
software. The flexibility of the package is based on the usage of low-level
graphics functions such that self-defined high-level graphics can be easily
implemented by users for specific purposes. Together with the seamless
connection between the powerful computational and visual environment in R,
it gives users more convenience and freedom to design figures for
better understanding complex patterns behind multiple dimensional data.
The package is described in Gu et al. 2014 <doi:10.1093/bioinformatics/btu393>.

Zuguang Gu

circlize

Circular Visualization

rainfallTransform function

<dl>
 <dt>region</dt>
<dd>Genomic positions. It can be a data frame with two
 columns which are start positions and end positions on a single chromosome.
 It can also be a bed-format data frame which contains the chromosome column.</dd> <dt>mode</dt>
<dd>How to calculate inter-distance. For a region, there is a distance to the 
 prevous region and also there is a distance to the next region. <code>mode</code>
 controls how to merge these two distances into one value.</dd> <dt>normalize_to_width</dt>
<dd>If it is <code>TRUE</code>, the value is the relative distance divided by the width of the region.</dd>
</dl>

Arguments

Calculate inter-distance of genomic regions — rainfallTransform

<dl>


 <dt>region</dt>
<dd>Genomic positions. It can be a data frame with two
 columns which are start positions and end positions on a single chromosome.
 It can also be a bed-format data frame which contains the chromosome column.</dd>

 <dt>mode</dt>
<dd>How to calculate inter-distance. For a region, there is a distance to the 
 prevous region and also there is a distance to the next region. <code>mode</code>
 controls how to merge these two distances into one value.</dd>

 <dt>normalize_to_width</dt>
<dd>If it is <code>TRUE</code>, the value is the relative distance divided by the width of the region.</dd>


</dl>

rainfallTransform: Calculate inter-distance of genomic regions

Description

Usage

Value

Arguments

Examples