Convert BioThermR Object to EBImage Object — as

Extracts the thermal matrix (raw or processed) from a 'BioThermR' object and converts it into an 'EBImage' class object. This conversion is essential for applying advanced morphological operations (e.g., thresholding, watershed, labeling) provided by the 'EBImage' package.

Usage

as_EBImage(img_obj, use_processed = TRUE, replace_na = 0, normalize = FALSE)

Arguments

img_obj: A 'BioThermR' object.
use_processed: Logical. If TRUE (default), uses the 'processed' matrix (which might already have masks applied). If FALSE, uses the 'raw' temperature matrix.
replace_na: Numeric. The value to replace NAs with, as 'EBImage' does not support missing values. Default is 0 (typically treated as background).
normalize: Logical. If TRUE, scales the matrix values linearly to the range [0, 1]. This is highly recommended for visualization or standard thresholding algorithms (like Otsu) in 'EBImage'. Default is FALSE (preserves actual temperature values).

Value

An Image object (defined in the 'EBImage' package).

Examples

if (FALSE) { # \dontrun{
# Load data
my_obj <- read_thermal_flir("data/mouse.jpg")

# Convert to EBImage format with normalization (for thresholding)
eb_norm <- as_EBImage(my_obj, normalize = TRUE)

# Convert preserving temperature values (for calculation)
eb_temp <- as_EBImage(my_obj, normalize = FALSE)
} # }