--- a
+++ b/man/cleanMetadata.Rd
@@ -0,0 +1,65 @@
+% Generated by roxygen2 (4.1.1): do not edit by hand
+% Please edit documentation in R/cleanMetadata.GSE10846.R, R/cleanMetadata.GSE11318.R, R/cleanMetadata.GSE31312.R, R/cleanMetadata.GSE34171.R, R/cleanMetadata.GSE56315.R, R/cleanMetadata.R
+\name{cleanMetadata.GSE10846}
+\alias{cleanMetadata}
+\alias{cleanMetadata.GSE10846}
+\alias{cleanMetadata.GSE11318}
+\alias{cleanMetadata.GSE31312}
+\alias{cleanMetadata.GSE34171}
+\alias{cleanMetadata.GSE56315}
+\alias{cleanMetadata.data.frame}
+\title{Generic metadata cleaning function}
+\usage{
+\method{cleanMetadata}{GSE10846}(meta_data)
+
+\method{cleanMetadata}{GSE11318}(meta_data)
+
+\method{cleanMetadata}{GSE31312}(meta_data)
+
+\method{cleanMetadata}{GSE34171}(meta_data)
+
+\method{cleanMetadata}{GSE56315}(meta_data)
+
+cleanMetadata(meta_data)
+
+\method{cleanMetadata}{data.frame}(meta_data)
+}
+\arguments{
+\item{meta_data}{Output from \code{downloadAndPrepareMetadata}.}
+}
+\value{
+Returns a specifically cleaned \code{data.frame} for the GEO dataset.
+}
+\description{
+S3 method dispatch giving the custom functions for formatting datasets.
+The function \code{downloadAndPrepareMetadata} adds a class \code{"GSEXXXX"}
+of the GEO number in question.
+The generic looks for functions of the name \code{cleanMetadata.GSEXXXX} and
+specific for that dataset and cleans metadata using that function.
+}
+\details{
+GSE10846:\cr
+   The cleanup of GSE10846 (LLMPP) adds two batches corresponding to each
+   the CHOP and the R-CHOP cohort.
+
+GSE11318:\cr
+   The cleanup of GSE11318 (NCI) adds the batch corresponding to
+   platform GPL570 (HG-U133 plus 2) and excludes the GPL6400 samples.
+
+GSE31312:\cr
+   This function makes the samples GSM776068, GSM776149, and GSM776462 to be
+   left out of the downstream preprocessing due to bad array quality.
+
+GSE34171:\cr
+   The cleanup of GSE34171 (MDFCI) adds three batches corresponding to each
+   platform (HG-U133 plus 2, HG-U133A, HG-U133B).
+
+GSE56315:\cr
+   The cleanup of GSE56315 (CHEPRETRO) adds two batches corresponding to each
+   clinical samples and normal sorted tissues both on platform
+   HG-U133 plus 2.
+}
+\author{
+Anders Ellern Bilgrau, Steffen Falgreen Larsen
+}
+