calc_np_all

function to calculate the network potential for each protein in a user-provided vector - cpp internal version

Provides a general toolkit for drug target identification. We include functionality to reduce large graphs to subgraphs and prioritize nodes. In addition to being optimized for use with generic graphs, we also provides support to analyze protein-protein interactions networks from online repositories. For more details on core method, refer to Weaver et al. (2021) <https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008755>.

Davis Weaver

crosstalkr

Analysis of Graph-Structured Data with a Focus on
Protein-Protein Interaction Networks

calc_np_all function

<dl><dt>exp</dt>
<dd>expression vector - assumed to be a named vector where the values are expression and the names are the gene name</dd>
<dt>g</dt>
<dd>igraph object - will be filtered so that only nodes found in both exp and g are kept</dd>
<dt>v</dt>
<dd>character vector of nodes over which to calculate network potential.</dd>
<dt>neighbors</dt>
<dd>named list containing the neighbors for each node of graph g. If not provided,
it will be computed</dd></dl>

Arguments

function to calculate the network potential for each protein in a user-provided vector - cpp internal version — calc_np_all

<dl>

<dt>exp</dt>
<dd>expression vector - assumed to be a named vector where the values are expression and the names are the gene name</dd>


<dt>g</dt>
<dd>igraph object - will be filtered so that only nodes found in both exp and g are kept</dd>


<dt>v</dt>
<dd>character vector of nodes over which to calculate network potential.</dd>


<dt>neighbors</dt>
<dd>named list containing the neighbors for each node of graph g. If not provided,
it will be computed</dd>

</dl>

calc_np_all: function to calculate the network potential for each protein in a user-provided vector - cpp internal version

Description

Usage

Value

Arguments