Update community and layer color palettes in MixMashNet objects

Updates the color palettes associated with communities and/or layers in mixMN_fit and multimixMN_fit objects. The function replaces only the colors corresponding to the provided names, leaving all other colors unchanged.

If colors are provided for names that do not exist in the object (e.g., unknown community labels or layer names), a warning is issued and those entries are ignored. If some communities or layers are not specified, their original colors are preserved.

Usage

update_palette(fit, community_colors = NULL, layer_colors = NULL)

Arguments

fit

An object of class mixMN_fit or multimixMN_fit.

community_colors

Optional named character vector specifying new colors for communities. Names must correspond to existing community labels (as stored in communities$palette). Missing names are ignored.

layer_colors

Optional named character vector specifying new colors for layers. Names must correspond to existing layer names (as stored in layers$palette). Only applicable to multimixMN_fit objects.

Value

The input object fit, with updated community and/or layer palettes.

Details

For mixMN_fit objects, community colors are updated in fit$communities$palette.

For multimixMN_fit objects, community colors are updated separately within each layer (i.e., in fit$layer_fits[[L]]$communities$palette), while layer colors are updated in fit$layers$palette.

The function performs in-place modification of the palettes and returns the updated object.