charisma (version 1.0.0)

charisma-package: charisma: Reproducible Color Characterization of Digital Images for Biological Studies

Description

Provides a standardized and reproducible framework for characterizing and classifying discrete color classes from digital images of biological organisms. The package automatically determines the presence or absence of 10 human-visible color categories (black, blue, brown, green, grey, orange, purple, red, white, yellow) using a biologically-inspired Color Look-Up Table (CLUT) that partitions HSV color space. Supports both fully automated and semi-automated (interactive) workflows with complete provenance tracking for reproducibility. Pre-processes images using the 'recolorize' package (Weller et al. 2024 tools:::Rd_expr_doi("10.1111/ele.14378")) for spatial-color binning, and integrates with 'pavo' (Maia et al. 2019 tools:::Rd_expr_doi("10.1111/2041-210X.13174")) for color pattern geometry statistics. Designed for high-throughput analysis and seamless integration with downstream evolutionary analyses.

Author

Maintainer: Shawn Schwartz (ORCID) [copyright holder]

Authors:

• Whitney Tsai (ORCID)

• Elizabeth Karan (ORCID)

• Mark Juhn

• Allison Shultz (ORCID)

• John McCormack (ORCID)

• Thomas Smith (ORCID)

• Michael Alfaro (ORCID)

See Also

Useful links:

• https://github.com/shawntz/charisma

• https://shawnschwartz.com/charisma/

• Report bugs at https://github.com/shawntz/charisma/issues