Add Normalization (#7)

NAMESPACE

@@ -10,6 +10,7 @@ export(compress_low_energy)
 export(get_plot_sample_ids)
 export(ir_to_plotftir)
 export(move_plot_legend)
+export(normalize_spectra)
 export(plot_ftir)
 export(plot_ftir_stacked)
 export(plotftir_to_chemospec)

README.Rmd

@@ -155,9 +155,10 @@ biodiesel_transm <- absorbance_to_transmittance(biodiesel)
 head(biodiesel_transm)
 ```
 
-Functions are provided for adjusting the baseline of spectra, adding or subtracting scalar values from entire spectra, and averaging spectra, see:
+Functions are provided for adjusting the baseline of spectra, adding or subtracting scalar values from entire spectra, normalizing spectra, and averaging spectra, see:
 * `recalculate_baseline()`
 * `add_scalar_value()` and `subtract_scalar_value()`
+* `normalize_spectra()`
 * `average_spectra()`
 
 ## Reading Files
@@ -313,9 +314,10 @@ biodiesel_transm <- absorbance_to_transmittance(biodiesel)
 head(biodiesel_transm)
 ```
 
-Des fonctions sont fournies pour ajuster la ligne de base des spectres, ajouter ou soustraire des valeurs scalaires de spectres entiers, et calculer la moyenne des spectres, voir :
+Des fonctions sont fournies pour ajuster la ligne de base des spectres, ajouter ou soustraire des valeurs scalaires de spectres entiers, normalisation des spectres, et calculer la moyenne des spectres, voir :
 * `recalculate_baseline()`
 * `add_scalar_value()` et `subtract_scalar_value()`
+* `normalize_spectra()`
 * `average_spectra()`
 
 ## Lecture des fichiers

README.md

@@ -10,7 +10,8 @@
 [![R-CMD-check](https://github.com/NRCan/PlotFTIR/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/NRCan/PlotFTIR/actions/workflows/R-CMD-check.yaml)
 [![Lifecycle:
 stable](https://img.shields.io/badge/lifecycle-stable-brightgreen.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
-[![Coveralls test coverage](https://coveralls.io/repos/github/NRCan/PlotFTIR/badge.svg)](https://coveralls.io/r/NRCan/PlotFTIR?branch=main)
+[![Coveralls test
+coverage](https://coveralls.io/repos/github/NRCan/PlotFTIR/badge.svg)](https://coveralls.io/r/NRCan/PlotFTIR?branch=main)
 <!-- badges: end -->
 
 ## Introduction and Installation
@@ -204,9 +205,10 @@ head(biodiesel_transm)
 ```
 
 Functions are provided for adjusting the baseline of spectra, adding or
-subtracting scalar values from entire spectra, and averaging spectra,
-see: \* `recalculate_baseline()` \* `add_scalar_value()` and
-`subtract_scalar_value()` \* `average_spectra()`
+subtracting scalar values from entire spectra, normalizing spectra, and
+averaging spectra, see: \* `recalculate_baseline()` \*
+`add_scalar_value()` and `subtract_scalar_value()` \*
+`normalize_spectra()` \* `average_spectra()`
 
 ## Reading Files
 
@@ -454,9 +456,11 @@ head(biodiesel_transm)
 ```
 
 Des fonctions sont fournies pour ajuster la ligne de base des spectres,
-ajouter ou soustraire des valeurs scalaires de spectres entiers, et
-calculer la moyenne des spectres, voir : \* `recalculate_baseline()` \*
-`add_scalar_value()` et `subtract_scalar_value()` \* `average_spectra()`
+ajouter ou soustraire des valeurs scalaires de spectres entiers,
+normalisation des spectres, et calculer la moyenne des spectres, voir :
+\* `recalculate_baseline()` \* `add_scalar_value()` et
+`subtract_scalar_value()` \* `normalize_spectra()` \*
+`average_spectra()`
 
 ## Lecture des fichiers
 

cran-comments.md

@@ -17,3 +17,4 @@
    * Changes to working directory were unavoidable by the interface to ChemoSpec (that package doesn't allow
    for specifying directory when importing files). As such, in-code changes to working directory are protected
    with a call to `on.exit()`. 
+   * This resubmit also adds a function for normalization of spectra per user request (in maths.R), with associated docs.