--- a
+++ b/man/prep_wilcoxon.Rd
@@ -0,0 +1,30 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/PrepWilcoxon.R
+\name{prep_wilcoxon}
+\alias{prep_wilcoxon}
+\title{Prepare Wilcoxon DEG data for plotting}
+\usage{
+prep_wilcoxon(input_path, output_name = NULL)
+}
+\arguments{
+\item{input_path}{Path to the RDS file containing the Wilcoxon DEG data frame.}
+
+\item{output_name}{Optional; name for the processed data frame, also used as the RDS file name.
+If not provided, the data frame will not be saved to file.}
+}
+\value{
+A data frame with processed Wilcoxon DEG data.
+}
+\description{
+This function reads a Wilcoxon DEG data frame from an RDS file, filters it using
+\code{\link{deg_filter}} function, adjusts the log2foldChange to absolute values, adds a pseudo-count to pValues,
+and transforms pValues for plotting. The final data frame is returned and
+optionally saved to a new RDS file.
+}
+\examples{
+wilcoxon_file <- system.file("extdata",
+                             "Wilcoxon_rank_sum_testoutRst_test.rds",
+                             package = "TransProR")
+Wilcoxon <- prep_wilcoxon(wilcoxon_file)
+
+}