Combined Visualisation of Phylogenetic and Epidemiological Data
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Documentation for package ‘phylepic’ version 0.2.0
Help Pages
| autoplot.phylepic | Plot "phylepic" objects |
| 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 tile geometry for calendar plots |
| GeomTextFilled | Annotate nodes with text and a background |
| geom_calendar | Specialised tile 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 |
| StatWeek | Calculate week bins from dates |
| StatWeek2d | Calculate week bins from dates |
| stat_week | Calculate week bins from dates |
| stat_week_2d | Calculate week bins with additional binning in the y axis |
| week_breaks | Breaks for week-binning date axes |