sample_metadata_from_filenames: extract metadata from sample names using regular expressions

In ftwkoopmans/msdap: Mass Spectrometry Downstream Analysis Pipeline

extract metadata from sample names using regular expressions

Description

note; user-facing function is sample_metadata_custom()

Usage

sample_metadata_from_filenames(
  sample_id,
  sample_property_regex = list(),
  sample_exclude_regex = "",
  group_order = NA,
  group_regex_array = NA
)

Arguments

sample_id	character array representing sample IDs
sample_property_regex	a named list of regular expressions to extract sample properties. name=sample property, value = array of length two with the regex and the replace string (first 2 arguments of sub())
sample_exclude_regex	optionally, regex to select samples that should be flagged as 'exclude'
group_order	optionally, you can provide a preferred ordering of the sample groups as a character array
group_regex_array	optionally, a regex that specifically extracts sample groups and leaves non-matches in an 'unassigned' group

ftwkoopmans/msdap documentation built on March 5, 2025, 12:15 a.m.