apply_spectra: Apply a function on the spectra of a Spectra* object

In pierreroudier/inspectr: Storing, Manipulating and Analysis Spectroscopy and Associated Data in R

Description

Aggregates spectral and data information of a Spectra object using a user-defined function.

Apply a function and update the spectra of a Spectra object. This function is particularly interesting for pre-processing, e.g to derive the spectra, or apply pre-processing functions such as snv.

Usage

apply_spectra(obj, fun, ...)

Arguments

obj	an object inheriting from class Spectra
fun	an aggregation function
...	expressions evaluated in the context of fun

Details

The philosophy of this function is to let the user free to use any function to pre-process a spectra collection, using either functions from the stats package, functions from other packages such as signal, or personal functions.

Value

An object of the same class as obj

Author(s)

Pierre Roudier [e-mail]

See Also

aggregate_spectra, snv, rnv

Examples

# Loading example data
data(australia)
spectra(australia) <- sr_no ~ ... ~ 350:2500

# Second derivative
r <- apply_spectra(australia, diff, 2)
plot(r)

# Smoothing kernel
k <- kernel("daniell", 20) # define a kernel
r <- apply_spectra(australia, kernapply, k)
plot(r)

## Not run: 
# Savitzky-Golay filter (from the signal package)
library(signal)
r <- apply_spectra(australia, sgolayfilt, n = 33, p = 4)
plot(r)

## End(Not run)

pierreroudier/inspectr documentation built on May 25, 2019, 6:08 a.m.