R/pp_exp.R

In willemdek11/CellSignature: What the Package Does (One Line, Title Case)

#' @title Pre-processing expression matrix
#' @description Subsets the user's dataset based on the genes that are common to the users dataset and Signature genes.
#' @param exp Dataframe of transcriptomic data (natural scale) containing genes as rows and samples as columns. Note: Gene names should be set as row names and duplicates are not allowed. Missing values are not allowed within the expression matrix. Check example- head(example_data): \code{\link{example_data}}.
#' @return Expression dataframe
#' @export

pp_exp <- function (exp, sig)
{
  sig <- sig
  g <- Reduce(intersect, list(as.character(row.names(exp)), sig$gene))
  exp <- exp[as.character(g), ]
  return(exp)
}