Clustree Plots : Parameters for clustering-tree (clustree) plots: a layered node-link diagram of how cluster assignments evolve across increasing clustering resolutions. Set scatterType to clustree on a Scatter2D
# clustreeArrowSize
# clustreeEdgeArrows
Flag to draw a directed arrowhead at the child (finer-resolution) end of each clustree transition edge
Type:
boolean
Default:
true
Used in:
Scatter2D
# clustreeEdgeMinAlpha
Minimum edge opacity (0..1) so very small transitions stay faintly visible; opacity scales with the incoming proportion up to 1
Type:
float
Default:
0.15
Used in:
Scatter2D
# clustreeEdgePalette
Ordered hex color stops (low to high transition count) for the clustree edge colour gradient. Defaults to a Spectral ramp
Type:
array
Default:
[]
Used in:
Scatter2D
# clustreeEdgeWidth
Constant rendered width (pixels) of clustree transition edges (count is shown by colour, incoming proportion by opacity, as in the clustree package)
Type:
float
Default:
1.5
Used in:
Scatter2D
# clustreeFlip
Flag to orient a clustree plot left-to-right (resolution on the x-axis) instead of top-to-bottom
Type:
boolean
Default:
false
Used in:
Scatter2D
# clustreeNodeLabels
Flag to draw the cluster-id label centered on each clustree node
Type:
boolean
Default:
true
Used in:
Scatter2D
# clustreeNodePalette
Qualitative hex colours used to colour clustree nodes by resolution level (one per level, cycled). Defaults to ColorBrewer Paired
Type:
array
Default:
[]
Used in:
Scatter2D
# clustreeNodeTextSize
Font size (pixels) of the cluster-id label drawn on each clustree node
Type:
float
Default:
9
Used in:
Scatter2D
# clustreePrefix
When deriving a clustree from a cluster-label matrix, use only the columns whose name starts with this prefix (one column per clustering resolution). When unset, every column is treated as a resolution level. Also used as the resolution-axis title
Type:
string
Default:
Used in:
Scatter2D
# clustreeShowAxes
Flag to show the raw numeric layout coordinate axes and grid in a clustree plot (debug). By default only the labelled resolution axis (one tick per clustering level) is shown and the order axis + grid are hidden
Type:
boolean
Default:
false
Used in:
Scatter2D
# clustreeShowEdgeLegend
Flag to show the clustree edge legends (transition Count colour ramp and In Prop opacity ramp)
Type:
boolean
Default:
true
Used in:
Scatter2D
# clustreeSweeps
Number of barycenter ordering sweeps used to reduce edge crossings in the layered clustree layout
Type:
integer
Default:
4
Used in:
Scatter2D
