Input DOC data into metadata
get_doc.RdTakes data from a separate table of DOC results and puts it in the metadata table under the correct sample. The code assumes DOC is reported in mg/L. See 'sample_metadata' in 'fewsdom' package for formatting.
Usage
get_doc(
doc_file,
doc_sheet = NULL,
doc_column,
name_column,
nskip = 0,
doc_delim = "-",
meta_file,
meta_sheet = NULL,
site_loc = c(1, 7),
rewrite = T,
...
)Arguments
- doc_file
a string of the file path of the DOC file, can be .xlsx or .csv
- doc_sheet
a string of the sheet name of the DOC results, only required if the DOC file is an .xlsx file
- doc_column
a numeric indicating which column the DOC results are stored in in the DOC file
- name_column
a numeric indicating which column the sample/site names are stored in the DOC file
- nskip
a numeric indicating a number of lines to skip when reading in the DOC file, optional
- doc_delim
a string indicating the separation between site name and other identifiers in the DOC data, it will only keep the first piece
- meta_file
a string indicating the file path of the metadata, can be .xlsx or .csv
- meta_sheet
a string of the metadata sheet name, only required if the metadata file is an .xlsx file
- site_loc
a vector indicating the start and end of the site name in the metadata data identifier
- rewrite
a logical, if TRUE original metadata will be saved over with metadata with DOC results, if FALSE it will add "_doc_added" to the end of the table
- ...
arguments to pass down to functions with 'get_doc'