read_data_csv: Reads a data matrix from a CSV file

In specmine: Metabolomics and Spectral Data Analysis and Mining

Reads a data matrix from a CSV file

Description

Imports a numeric data table from a CSV file and converts it to the internal matrix structure used by the package.

Usage

read_data_csv(
  filename,
  format = "row",
  header.col = TRUE,
  header.row = TRUE,
  sep = ","
)

Arguments

filename	Path to the CSV file containing the data matrix.
format	Data layout format, either "row" or "col". If "row", samples are assumed to be stored in rows and the matrix is transposed so that samples become columns in the returned matrix. If "col", the matrix is kept as read.
header.col	Logical; whether the file has a header row.
header.row	Logical; whether the file has a row names column.
sep	Field separator used in the file.

Value

A numeric matrix containing the imported data in the package's internal orientation, with variables in rows and samples in columns. If format = "row", the input table is transposed before being returned. The function stops with an error if non-numeric values are found in the data table.

Examples

data_file <- tempfile(fileext = ".csv")
data_in <- data.frame(
  x1 = c(1.1, 2.2, 3.3),
  x2 = c(4.4, 5.5, 6.6),
  row.names = c("s1", "s2", "s3")
)
utils::write.csv(data_in, data_file)
read_data_csv(data_file, format = "row", header.row = TRUE)

specmine documentation built on Aug. 5, 2026, 5:06 p.m.