swh:1:snp:0c004a03453a29b80f921a24433f7e780b9ceb53
Tip revision: fc1777a6ebdabf2ea4e225a2337f0d9f9ae151a8 authored by Alexey Sergushichev on 08 April 2021, 15:17:58 UTC
Update .travis.yml
Update .travis.yml
Tip revision: fc1777a
adjustDataset.Rd
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/adjustDataset.R
\name{adjustDataset}
\alias{adjustDataset}
\title{Adjust dataset}
\usage{
adjustDataset(
es,
scaleColumnSum = NULL,
log2 = FALSE,
onePlusLog2 = FALSE,
inverseLog2 = FALSE,
quantileNormalize = FALSE,
zScore = FALSE,
robustZScore = FALSE,
sweep = NULL
)
}
\arguments{
\item{es}{Expression set to perform adjustment on}
\item{scaleColumnSum}{perform sum scaling of columns (default FALSE)}
\item{log2}{perform logarithm2 adjustment (default FALSE)}
\item{onePlusLog2}{perform log2(1+x) adjustment (default FALSE)}
\item{inverseLog2}{perform 2^x adjustment (default FALSE)}
\item{quantileNormalize}{perform quantile normalization (default FALSE)}
\item{zScore}{perform zScore adjustment:
subtract mean, divide by std (default FALSE)}
\item{robustZScore}{perform robustZScore adjustment:
subtract median, divide by MAD (default FALSE)}
\item{sweep}{perform sweep adjustment on rows/columns (default FALSE)}
}
\value{
Nothing. Adjusted dataset will be assigned as ES in global environment
}
\description{
Adjust dataset
}
\examples{
\dontrun{
es <- gseGSE('GSE53986')[[1]]
adjustDataset(es, log2 = T, quantileNormalize = T)
}
}