Remove problematic peak mappings

Remove peak mappings that were problematic (unidentified, missing, or ambiguous) during peak mapping.

iso_remove_problematic_peak_mappings(...)

# S3 method for iso_file_list
iso_remove_problematic_peak_mappings(
  iso_files,
  remove_unidentified = TRUE,
  remove_missing = TRUE,
  remove_ambiguous = TRUE,
  remove_mapping_info_columns = TRUE,
  quiet = default(quiet)
)

# S3 method for data.frame
iso_remove_problematic_peak_mappings(
  peak_table,
  remove_unidentified = TRUE,
  remove_missing = TRUE,
  remove_ambiguous = TRUE,
  remove_mapping_info_columns = TRUE,
  quiet = default(quiet)
)

Arguments

...	S3 method placeholder parameters, see class specific functions for details on parameters
iso_files	collection of continuous flow iso_file objects
quiet	whether to display (quiet=FALSE) or silence (quiet = TRUE) information messages. Set parameter to overwrite global defaults for this function or set global defaults with calls to iso_turn_info_message_on and iso_turn_info_message_off
peak_table	data frame with mapped peaks. Requires the `is_identified`, `is_missing` and `is_ambiguous` columns to be present.
remove_mapping_info_column	whether to automatically remove mapping info columns. If true and: `remove_unidentified = TRUE` - `is_identified` column automatically removed `remove_missing = TRUE` - `is_missing` column automatically removed `remove_ambiguous = TRUE` - `is_ambiguous`, `n_matches`, and `n_overlapping` columns automatically removed

Value

the data with the problematic peak mappings remove

Arguments

Value

See also