Import LipoType lipidomics data from CSV file — import_lipotype_csv • platjam

Import LipoType lipidomics data from CSV file

import_lipotype_csv(
  csv,
  type = "raw",
  curation_txt = NULL,
  num_header_rows = 3,
  num_anno_columns = 7,
  verbose = FALSE,
  ...
)

Arguments

csv: character path to a comma-delimited file (csv) as provided in a LipoType summary report.
curation_txt: data.frame whose first column should match the column headers found in the LipoType measurement data. If curation_txt is not supplied, then values will be split into columns by _ underscore or " " whitespace characters.
...: additional arguments are ignored.

Value

SummarizedExperiment where:

rowData represents lipid measurement annotations
colData represents sample annotations, optionally including annotations via a data.frame supplied as curation_txt.

See also

Other jam import functions: coverage_matrix2nmat(), deepTools_matrix2nmat(), frequency_matrix2nmat(), import_metabolomics_niehs(), import_nanostring_csv(), import_nanostring_rcc(), import_nanostring_rlf(), import_proteomics_PD(), import_proteomics_mascot(), import_salmon_quant(), process_metab_compounds_file()