merge_duplicated.Rd

% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/merge_duplicated.R
\name{merge_duplicated}
\alias{merge_duplicated}
\title{Function Duplicated Entries}
\usage{
merge_duplicated(
  data,
  assay_index = 1,
  method = "mean",
  rownames_in_colum = F,
  index_rowname = 1,
  shorten_names = F,
  int_1 = 1,
  int_2 = 12,
  to_rownames = T,
  original_names = F,
  parallel = T,
  no_cluster = NULL,
  unnest = F
)
}
\arguments{
\item{data}{Matrix like object or summarized experiment with rownames.}

\item{method}{Character - method for merging | "mean" ""median"}

\item{index_rowname}{Integer - Index of column containing rownames}

\item{shorten_names}{Logical - Should the row names be shortened to match patient IDs? | Careful for duplicates}

\item{int_1}{Integer - First Integer for substr of row name}

\item{int_2}{Integer - Second Integer for substr of row name}

\item{to_rownames}{Locigal - use tibble::column_to_rownames at the end?}

\item{unnest}{Logical - unnest colData if data is a SummarizedExperiment}

\item{index}{Integer - assay index for summarized experiment}
}
\value{

}
\description{
This function combines duplicated entries by a given mathematical method. (Like Mean, Median)
}
\details{
Per default it summarizes columns. When working with TCGA data, all patients or samples get a barcode. A patient can have multiple sample and thus far the first 12 characters of a ID represent a patient. Following characters specifiy the sample.
Therefore, it is possible to have multiple samples of the same patient in an expression matrix. Nevertheless, the column names (samples) are unique.
}
\examples{
cl <- get_no_cores()
}