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#### Transformation functions ####
# Converts a matrix to a vector
#
# \code{clearConsole} clears the console.
#
# @examples
# # Generate a sampel mutations_array
# sample_matrix <- matrix(sample(20,4),nrow=2, dimnames=list( c("cdr","fwr"), c("r","s") ))
# collapseMatrixToVector(sample_matrix)
#
collapseMatrixToVector <- function(mat, byrow = FALSE){
# Get the row and column names
rnames <- rownames(mat)
cnames <- colnames(mat)
if (is.null(rnames)) { rnames <- paste0("Row", 1:nrow(mat)) }
if (is.null(cnames)) { cnames <- paste0("Column", 1:ncol(mat)) }
# Combine the row and columns names
cobminedNames <- outer(rnames, cnames, paste, sep = "_")
# Collapse the matrix to a vector
if (byrow) {
collapsed_mat <- c(t(mat))
names(collapsed_mat) <- c(t(cobminedNames))
}
else{
collapsed_mat <- c(mat)
names(collapsed_mat) <- c(cobminedNames)
}
return(collapsed_mat)
}
# Convert columns to uppercase
#
# @param data data.frame to modify.
# @param columns vector of column names to transform to uppercase.
# @return The input data.frame with all entries in \code{columns} transformed
# to uppercase.
toupperColumns <- function(data, columns) {
data <- mutate_at(data, columns, toupper)
return(data)
}
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