A function to calculate the adjusted p-value for each gene (Datta and Datta, 2005)

A novel pseudo-value regression approach for the differential co-expression network analysis in expression data, which can incorporate additional clinical variables in the model. This is a direct regression modeling for the differential network analysis, and it is therefore computationally amenable for the most users. The full methodological details can be found in Ahn S et al (2023) <doi:10.1186/s12859-022-05123-w>.

Seungjun Ahn

PRANA

Pseudo-Value Regression Approach for Network Analysis (PRANA)

Somnath Datta

EBS function

<dl><dt>pvo</dt>
<dd>An object with p-values estimated from the user-provided expression data</dd>
<dt>alpha</dt>
<dd>a level of significance (default is 0.05)</dd>
<dt>B</dt>
<dd>size of bootstrapping (default is 500)</dd>
<dt>h</dt>
<dd>a bandwidth (default is 1)</dd></dl>

Arguments

EBS — EBS

<dl>

<dt>pvo</dt>
<dd>An object with p-values estimated from the user-provided expression data</dd>


<dt>alpha</dt>
<dd>a level of significance (default is 0.05)</dd>


<dt>B</dt>
<dd>size of bootstrapping (default is 500)</dd>


<dt>h</dt>
<dd>a bandwidth (default is 1)</dd>

</dl>

EBS: EBS

Description

Usage

Value

Arguments

References