# Combined Visualisation of Phylogenetic and Epidemiological Data

## Documentation for package ‘phylepic’ version 0.3.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

autoplot.phylepic | Plot "phylepic" objects
breaks_cached | Cached scale break function
CoordTree | Cartesian coordinates with specialised grid for trees
coord_tree | Cartesian coordinates with specialised grid for trees
create_tree_layout | Create a graph layout for plotting
drop.clade | Drop a clade from a phylogentic tree
GeomCalendar | Specialised rectangular geometry for calendar plots
GeomTextFilled | Annotate nodes with text and a background
geom_calendar | Specialised rectangular geometry for calendar plots
geom_node_text_filled | Annotate nodes with text and a background
oob_infinite | Out of bounds handling
phylepic | Combine metadata (a line list) with a phylogenetic tree
plot.phylepic | Plot "phylepic" objects
plot_bars | Plot metadata bars panel
plot_calendar | Plot calendar panel
plot_epicurve | Plot epidemic curve panel
plot_tree | Plot phylogenetic tree panel
scale_x_week | Date scale with breaks specified by week
StatBin2dAuto | Calculate two-dimensional bins using scale breaks
StatBinAuto | Calculate bins using scale breaks
StatBinLocation | Annotate rows with 2D bin positions
stat_bin2d_auto | Calculate two-dimensional bins using scale breaks
stat_bin_2d_auto | Calculate two-dimensional bins using scale breaks
stat_bin_auto | Calculate bins using scale breaks
stat_bin_location | Annotate rows with 2D bin positions
week_breaks | Breaks for week-binning date axes