MultiTraits

New Features and Major Improvements

• **PTMN Module (Plant Trait Multilayer Networks)**: Introduced a comprehensive new module for constructing, analyzing, and visualizing plant trait multilayer networks. This module systematically integrates multilayer network theory with plant functional trait analysis and includes three core functions:
• **PTMN()**: Constructs phylogenetic trait multilayer networks where nodes represent traits organized into layers (e.g., organs or functional systems) and edges represent significant correlations. It supports correlation thresholding, p-value filtering, FDR correction, and optional phylogenetic correction using independent contrasts.
• **PTMN_metrics()**: Calculates node-level and global network metrics for PTMNs, identifying hub traits and cross-layer modules. Included metrics are interlayer degree, closeness, clustering coefficient, edge density, path length, and modular association.
• **PTMN_plot()**: Visualizes PTMNs with options for standard and circular layouts, customizable node and edge aesthetics, and layer/module highlighting. It clearly differentiates intralayer edges (black) from interlayer edges (red).

Bug fixes

• **LHS_strategy_scheme()**: Corrected an error in the strategy description mapping. The trait sequence was previously misinterpreted as a Leaf-Seed-Height order. The text descriptions in the strategy column have now been fixed to accurately reflect the standard Leaf-Height-Seed (L-H-S) framework.