% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/ppi_analysis.R
\name{plot_network_pipeline}
\alias{plot_network_pipeline}
\title{Generate protein-protein interaction network plots for single-cell DEGs}
\usage{
plot_network_pipeline(
  network_list,
  result_categories_list,
  top_hubs = 20,
  ncol = 2,
  show_barplot = FALSE
)
}
\arguments{
\item{network_list}{A single igraph object or a nested list: cell_type → DEG_type → igraph}

\item{result_categories_list}{A data.frame or named list matching the networks, containing DEG results.}

\item{top_hubs}{Number of hub genes to annotate (default = 20)}

\item{ncol}{Number of columns when combining DEG type plots (default = 2)}

\item{show_barplot}{Logical indicating whether hub barplots are displayed.}
}
\value{
Named list of network plots per cell type (or `"all"` for single network)
}
\description{
Accepts  a nested list of igraph networks (cell_type × DEG_type) object and produces annotated network visualizations.
}
