mosaic_prepare: Prepare a mosaic

In pliman: Tools for Plant Image Analysis

Prepare a mosaic

Description

Prepare an SpatRaster object to be analyzed in pliman. This includes cropping the original mosaic, aligning it, and cropping the aligned object. The resulting object is an object of class Image that can be further analyzed.

Usage

mosaic_prepare(
  mosaic,
  r = 3,
  g = 2,
  b = 1,
  re = 4,
  nir = 5,
  crop_mosaic = FALSE,
  align = TRUE,
  crop_aligned = TRUE,
  rescale = TRUE,
  coef = 0,
  viewer = "mapview",
  max_pixels = 5e+05,
  show = "rgb",
  index = "R"
)

Arguments

mosaic	A mosaic of class SpatRaster, generally imported with mosaic_input().
r	The layer for the Red band (default: 3).
g	The layer for the Green band (default: 2).
b	The layer for the Blue band (default: 1).
re	The layer for the Red-edge band (default: 4).
nir	The layer for the Near-infrared band(default: 5).
crop_mosaic	Logical, whether to crop the mosaic interactively before aligning it (default: FALSE).
align	Logical, whether to align the mosaic interactively (default: TRUE).
crop_aligned	Logical, whether to crop the aligned mosaic interactively (default: TRUE).
rescale	Rescale the final values? If TRUE the final values are rescaled so that the maximum value is 1.
coef	An addition coefficient applied to the resulting object. This is useful to adjust the brightness of the final image. Defaults to 0.
viewer	The viewer option. If not provided, the value is retrieved using get_pliman_viewer(). This option controls the type of viewer to use for interactive plotting. The available options are "base" and "mapview". If set to "base", the base R graphics system is used for interactive plotting. If set to "mapview", the mapview package is used. To set this argument globally for all functions in the package, you can use the set_pliman_viewer() function. For example, you can run set_pliman_viewer("mapview") to set the viewer option to "mapview" for all functions.
max_pixels	Maximum number of pixels to render in the map or plot (default: 500000).
show	The display option for the map view. Options are "rgb" for RGB view and "index" for index view.
index	The index to use for the index view. Defaults to "B".

Value

A prepared object of class Image.

Examples

if(interactive()){
library(pliman)
mosaic <- mosaic_input(system.file("ex/elev.tif", package="terra"))
mosaic_prepare(mosaic)
}

pliman documentation built on Oct. 15, 2023, 1:06 a.m.