--- a
+++ b/man/AMARETTO_Preprocess.Rd
@@ -0,0 +1,28 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/amaretto_preprocess.R
+\name{AMARETTO_Preprocess}
+\alias{AMARETTO_Preprocess}
+\title{AMARETTO_Preprocess}
+\usage{
+AMARETTO_Preprocess(DataSetDirectories = DataSetDirectories,
+  BatchData = BatchData)
+}
+\arguments{
+\item{DataSetDirectories}{DataSetDirectories}
+
+\item{BatchData}{BatchData}
+}
+\value{
+result
+}
+\description{
+Wrapper code that analyzes process TCGA GISTIC (CNV) and gene expression (rna-seq or microarray) data  via one call
+}
+\examples{
+\dontrun{
+TargetDirectory <-  "Downloads"  # path to data download directory
+CancerSite <- 'CHOL'
+DataSetDirectories <- AMARETTO_Download(CancerSite,TargetDirectory)
+ProcessedData <- AMARETTO_Preprocess(DataSetDirectories,BatchData)
+}
+}