Package index • HSItools

All functions

calculate_band_difference(): Calculate band difference

calculate_band_ratio(): Calculate band ratio

calculate_derivative(): Calculate spectral derivative

calculate_lambdaremp(): Calculate lambdaREMP

calculate_ndi(): Calculate normalized difference index (NDI)

calculate_raba(): Calculate Relative Absorption Band Area (RABA)

calculate_rabd(): Calculate Relative Absorption Band Depth (RABD)

calculate_rmean(): Calculate Rmean

change_output_dir(): Adjust paths from Shiny output

create_normalized_raster(): Raster normalization

create_reference_raster(): Create reference SpatRaster

defineRGB(): Choose the layers to use for plotting red, green, and blue

extract_spectral_indices(): Extract spectral indices

extract_spectral_profile(): Extract spectral profile from the ROI

extract_spectral_series(): Extract average proxy series from ROI

filter_median(): Smooth raster with focal median

filter_savgol(): Apply a Savitzky-Golay smoothing filter

get_reflectance(): Get the reflectance

normalization(): Raster normalization: calculation

pixel_to_distance(): Get depth in metric units

plot_composite(): Composite hyperspectral indices plots Can composite line profiles and SpatRasters

plot_profile_spectral_profile(): Line plot of spectral profile from the ROI

plot_profile_spectral_series(): Line plots of calculated proxies series

plot_raster_overlay(): Overlay color plot of proxy on RGB

plot_raster_proxy(): Plot spatial map plots of calculated proxies, and optionally save to file

plot_raster_rgb(): Spatial map plots of RGB image

proxies: Preset proxies settings

raster_crop(): Crop SpatRaster

remove_continuum(): Remove continuum from spectrum

roi_to_vect(): Create SpatVector from Shiny ROIs

run_core(): Run shiny app to set up core image analysis parameters

spectra_position(): Find position of selected spectra

spectra_sub(): Subset SpatRaster by spectra

stretch_raster_full(): Stretch and optionally save full RGB preview of SpatRaster