calc_stats_2x3

Calculate p-values for 2x3-way analysis

Generates interactive plots for analysing and visualising
three-class high dimensional data. It is particularly suited to visualising
differences in continuous attributes such as gene/protein/biomarker
expression levels between three groups. Differential gene/biomarker
expression analysis between two classes is typically shown as a volcano
plot. However, with three groups this type of visualisation is particularly
difficult to interpret. This package generates 3D volcano plots and 3-way
polar plots for easier interpretation of three-class data.

Katriona Goldmann

volcano3D

3D Volcano Plots and Polar Plots for Three-Class Data

Myles Lewis

calc_stats_2x3 function

<dl><dt>data</dt>
<dd>Dataframe or matrix with variables in columns and samples in rows</dd>
<dt>outcome</dt>
<dd>Factor with 2 levels</dd>
<dt>group</dt>
<dd>Factor with 3 levels</dd>
<dt>padj.method</dt>
<dd>Can be <code>"qvalue"</code> or any method available in <code>p.adjust</code>.
The option <code>"none"</code> is a pass-through.</dd>
<dt>test</dt>
<dd>Character value specifying the statistical test between the 2
level response outcome. Current options are "t.test" or "wilcoxon".</dd>
<dt>exact</dt>
<dd>Logical for whether to use an exact test (Wilcoxon test only)</dd></dl>

Arguments

Calculate p-values for 2x3-way analysis — calc_stats_2x3

<dl>

<dt>data</dt>
<dd>Dataframe or matrix with variables in columns and samples in rows</dd>


<dt>outcome</dt>
<dd>Factor with 2 levels</dd>


<dt>group</dt>
<dd>Factor with 3 levels</dd>


<dt>padj.method</dt>
<dd>Can be <code>"qvalue"</code> or any method available in <code>p.adjust</code>.
The option <code>"none"</code> is a pass-through.</dd>


<dt>test</dt>
<dd>Character value specifying the statistical test between the 2
level response outcome. Current options are "t.test" or "wilcoxon".</dd>


<dt>exact</dt>
<dd>Logical for whether to use an exact test (Wilcoxon test only)</dd>

</dl>

calc_stats_2x3: Calculate p-values for 2x3-way analysis

Description

Usage

Value

Arguments