Read CDF file — read_cdf • chromConverter

Read CDF file

Usage

read_cdf(
  file,
  format_out = c("matrix", "data.frame"),
  data_format = c("wide", "long"),
  what = "chromatogram",
  read_metadata = TRUE,
  metadata_format = c("chromconverter", "raw"),
  collapse = TRUE,
  ...
)

Arguments

file: Path to file.
format_out: R format. Either matrix or data.frame.
data_format: Whether to return data in wide or long format. For 2D files, "long" format returns the retention time as the first column of the data.frame or matrix while "wide" format returns the retention time as the rownames of the object.
what: Whether to extract chromatogram and/or peak_table.
read_metadata: Whether to read metadata from file.
metadata_format: Format to output metadata. Either chromconverter or raw.
collapse: Logical. Whether to collapse lists that only contain a single element.
...: Additional arguments to parser. The ms_format argument can be used here to specify whether to return mass spectra in list format or as a data.frame.

Value

A chromatogram in the format specified by the format_out and data_format arguments.

Author

Ethan Bass