Read 'Agilent ChemStation' report files

Reads peak tables from 'Agilent ChemStation' Report.TXT files, or from the Result.xml files 'ChemStation' writes when set up to export its results. Only Result.xml records where each peak starts and ends, so it is read in preference to a Report.TXT in the same directory.

Usage

read_chemstation_reports(
  paths,
  peaktable_format = c("chromatographr", "original"),
  metadata_format = c("chromconverter", "raw"),
  data_format = NULL
)

Arguments

paths

Paths to 'ChemStation' Report.TXT or Result.xml files.

peaktable_format

Whether to return peak tables in the standard chromatographr layout (the default) or with all the columns the file provides (original). A chromatographr table has the columns rt, start, end, area, height and FWHM (the full width at half maximum), with times in the same unit as the format's chromatograms and NA where the file does not record a value.

metadata_format

Format to output metadata. Either chromconverter or raw.

data_format

Deprecated. Use peaktable_format instead.

Value

A peak_list: a list with one element per report, named by its .D directory, each holding one peak table per signal, named by wavelength.

See also

Other 'Agilent' parsers: read_agilent_d(), read_agilent_dx(), read_agilent_rslt(), read_chemstation_ch(), read_chemstation_csv(), read_chemstation_logs(), read_chemstation_method(), read_chemstation_ms(), read_chemstation_uv()

Author

Ethan Bass

Examples

if (FALSE) { # \dontrun{
read_chemstation_reports("path/to/report.txt")
} # }