Check blanks and add to sample data

Allows the user to visually check excitation-emission matrix (EEM) plots of the blanks, and then, if approved, the blanks will be added to the eem objects for further processing.

Usage

add_blanks(eemlist, blanklist)

Arguments

eemlist

An eemlist object.

blanklist

Optional. An eem or eemlist containing the blank EEM(s).

Value

An eemlist where each eem object has two added components:

• blk_file: file path of the blank associated with the sample

• blk_x: the blank EEM associated with the sample

Details

If more than one blank is supplied, the function links each blank to its sample using the metadata name. These names must match between the sample and its corresponding blank. Because of this, samples must already have metadata assigned using add_metadata().

If a blanklist is not provided, one is automatically generated from the eemlist attribute "sample_type", using the samples marked as "iblank".

Note

If the instrument blank is not accepted, the function will attempt to use an analytical blank instead (a sample type 'sblank'). If this blank is used instead, the blank will be removed from the sample set and a note will be written to the readme.

Examples

eemlist <- add_metadata(metadata, example_eems)
blanklist <- subset_type(eemlist, "iblank")
augment_eemlist <- add_blanks(eemlist, blanklist)