p_val_count

Calculate p.value for x given set of null values using counts

Interactions between different biological entities are crucial for the function of biological systems.
In such networks, nodes represent biological elements, such as genes, proteins and microbes, and their interactions can be defined by edges, which can be either binary or weighted.
The dysregulation of these networks can be associated with different clinical conditions such as diseases and response to treatments.
However, such variations often occur locally and do not concern the whole network.
To capture local variations of such networks, we propose multiplex network differential analysis (MNDA).
MNDA allows to quantify the variations in the local neighborhood of each node (e.g. gene) between the two given clinical states, and to test for statistical significance of such variation.
Yousefi et al. (2023) <doi:10.1101/2023.01.22.525058>.

Behnam Yousefi

PLEXI

Multiplex Network Analysis

Farzaneh Firoozbakht

p_val_count function

<dl><dt>x</dt>
<dd>numeric value</dd>
<dt>null.values</dt>
<dd>a numeric vector of null distribution samples</dd>
<dt>alternative</dt>
<dd>alterative test including: <code>"two.sided"</code> [default],
<code>"greater"</code>, and <code>"less"</code></dd></dl>

Arguments

Calculate p.value for x given set of null values using counts — p_val_count

<dl>

<dt>x</dt>
<dd>numeric value</dd>


<dt>null.values</dt>
<dd>a numeric vector of null distribution samples</dd>


<dt>alternative</dt>
<dd>alterative test including: <code>"two.sided"</code> [default],
<code>"greater"</code>, and <code>"less"</code></dd>

</dl>

p_val_count: Calculate p.value for x given set of null values using counts

Description

Usage

Value

Arguments

Examples