PlotConversionFreq

This is the second diagnostic plot (estimated conversions) generated by GRAND3.

Nucleotide conversion sequencing experiments have been
developed to add a temporal dimension to RNA-seq and single-cell RNA-seq. Such
experiments require specialized tools for primary processing such as GRAND-SLAM,
(see 'Jürges et al' <doi:10.1093/bioinformatics/bty256>) and specialized tools for
downstream analyses. 'grandR' provides a comprehensive toolbox for quality control,
kinetic modeling, differential gene expression analysis and visualization of such data.

Florian Erhard

grandR

Comprehensive Analysis of Nucleotide Conversion Sequencing Data

Teresa Rummel

Lygeri Sakellaridi

Kevin Berg

PlotConversionFreq function

<dl><dt>data</dt>
<dd>the grandR object</dd>
<dt>category</dt>
<dd>show a specific category (see GetDiagnosticParameters); cannot be NULL</dd>
<dt>sample</dt>
<dd>compare subreads for a specific sample; can be NULL, then compare all samples per subread</dd>
<dt>max.columns</dt>
<dd>if there are more columns (samples for bulk, cells for single cell) than this, show boxplots instead of points</dd></dl>

Arguments

Diagnostic plot for conversion frequencies — PlotConversionFreq

<dl>

<dt>data</dt>
<dd>the grandR object</dd>


<dt>category</dt>
<dd>show a specific category (see GetDiagnosticParameters); cannot be NULL</dd>


<dt>sample</dt>
<dd>compare subreads for a specific sample; can be NULL, then compare all samples per subread</dd>


<dt>max.columns</dt>
<dd>if there are more columns (samples for bulk, cells for single cell) than this, show boxplots instead of points</dd>

</dl>

PlotConversionFreq: Diagnostic plot for conversion frequencies

Description

Usage

Value

Arguments

Details