# Load the relevant packages
library(NCmisc)
library(stringr)

# Load the script and parse lines
file_name <- "example_script.R"
file_lines <- readLines(file_name)

# Save the function and package names
functions_list <- list.functions.in.file(file_name)
names(functions_list) <- paste(str_remove(names(functions_list), "package:"), "::", sep = "")

# Initialise new file
new_file <- file_lines

# Exclude lines with comments or package loads
indices <- which(str_detect(new_file, "#|library"))
new_file[indices] <- ""

# Create nested loop to prepend each function with package name
for(i in 1:length(functions_list)) {
  for(j in 1:length(functions_list[[i]])) {
    new_file <<- str_replace_all(new_file,
                                 functions_list[[i]][j],
                                 paste(names(functions_list)[i], functions_list[[i]][j], sep = ""))
  }
}

# Replace lines with comments or package loads
new_file[indices] <- file_lines[indices]

# Overwrite the old file
cat(new_file, file = file_name, sep = "\n")