Finds and imports reflectance/transmittance/absorbance data from spectra files in a given location.
Arguments
- where
Folder in which files are located (defaults to current working directory).
- ext
File extension to be searched for, without the "." (defaults to
txt
). You can also use a character vector to specify multiple file extensions.- lim
A vector with two numbers determining the wavelength limits to be considered (defaults to
c(300, 700)
).- subdir
Should subdirectories within the
where
folder be included in the search? (defaults toFALSE
).- subdir.names
Should subdirectory path be included in the name of the spectra? (defaults to
FALSE
).- ignore.case
Should the extension search be case insensitive? (defaults to
TRUE
)- interpolate
Boolean indicated whether spectral data should be interpolated and pruned at every nanometre. Note that this option can only work if all input data samples the same wavelengths. Defaults to
TRUE
.- ...
Arguments passed to individual parsers.
Value
A data.frame, containing the wavelengths in the first column and individual imported spectral files in the subsequent columns.
Details
You can customise the type of parallel processing used by this function with
the future::plan()
function. This works on all operating systems, as well
as high performance computing (HPC) environment. Similarly, you can customise
the way progress is shown with the progressr::handlers()
functions
(progress bar, acoustic feedback, nothing, etc.)
Examples
spcs <- lr_get_spec(system.file("testdata", package = "lightr"), ext = "jdx")
#> 1 files found; importing spectra:
head(spcs)
#> wl OceanOptics_period
#> 1 300 154.3030
#> 2 301 129.2981
#> 3 302 115.9120
#> 4 303 122.5818
#> 5 304 125.9307
#> 6 305 152.3136