Colors

Color Selection

Color of graph components can be changed.

Preset color gradients available for nodes.

PangyPlot provides different methods of coloring the nodes in the visualization. Node colors are selected on a 3-color scale that can form a gradient. Link and background colors can be also be changed. A set of predefined color palettes are available.

Color Presets

Name	Color 1	Color 2	Color 3	Gradient
Primary
Peach
Mystic
Purples
Greens
Blues
Heat
GoldenTide
Iris
Sorbet
CoralSky
Viridis
Mako
Magma
Rocket

Note

Some palettes are better for discrete colors and some are better for heatmap gradients. An attempt was made to provide multiple colorblind-friendly palettes but not all of them are guaranteed to be safe.

Color Style

Different coloring styles can be applied to nodes.

Depending on the mode selected, the colors will either be used to form as a continuous gradient or will be used as three discrete colors.

Node Type discrete

The color is determined by the type of node: segment, bubble, or chain.

Bubble Size continuous

The color is determined by the total number of segments inside a bubble or chain. Not to be confused with length, which is based on total basepairs.

Node Length continuous

The color is determined by the total number of basepairs represented by a node.

Ref/Alt discrete

Reference and alternative paths are colored differently using a 2-color scheme from the gradient ends.

Position continuous

The color is determined by the genomic position along the reference path.

GC Content continuous

The color is determined by the GC percentage of all basepairs represented by a node (with the human genome averaging ~41%).

Solid discrete

A single uniform color is applied to all nodes.