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_pkgdown.yml
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/
_pkgdown.yml
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url: https://williamgearty.com/deeptime/
template:
bootstrap: 5
bootswatch: flatly
bslib:
navbar-padding-y: 8px
includes:
in_header: |
<!-- Google tag (gtag.js) -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-B48C68KGQJ"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());
gtag('config', 'G-B48C68KGQJ');
</script>
figures:
dev: grDevices::png
development:
mode: auto
authors:
William Gearty:
href: https://williamgearty.com
articles:
- title: Articles
navbar: ~
contents:
- coord_geo
- phylogenies
- coord
- traits
- time
- geo
- ggarrange2
reference:
- title: Adding geological timescales to plots
desc: >
The original purpose of deeptime, `coord_geo()` adds a highly
customizable timescale to any `{ggplot2}` plot. Other functions now supplement
it to aid in the visualization of data over long time scales.
contents:
- coord_geo
- scale_color_geo
- get_scale_data
- guide_geo
- subtitle: Built-in interval data
desc: >
deeptime includes a selection of built-in interval data from the
most up-to-date Geological Time Scale. These dataframes include name,
max age, min age, abbreviation, and color columns.
contents:
- eons
- eras
- periods
- epochs
- stages
- subtitle: Deprecated functions
desc: >
The following functions represent the first and second iterations of what is
now `coord_geo()`. These functions still work but are considered
"deprecated". There is no guarantee they will be supported ad infinitum.
Users are strongly encouraged to use `coord_geo()` instead, which has more
features and is still under active development.
contents:
- gggeo_scale
- title: Adding geological timescales to phylogenies
desc: >
These functions can be used to add timescales specifically to phylogenies
that are plotted with [ggtree](https://www.bioconductor.org/packages/ggtree).
contents:
- coord_geo
- coord_geo_radial
- coord_geo_polar
- scale_color_geo
- get_scale_data
- guide_geo
- title: Transforming coordinate systems
desc: >
These functions can be used to modify the way that your data is plotted
by `{ggplot2}`.
contents:
- coord_trans_flip
- coord_trans_xy
- title: Plotting trait data
desc: >
These functions can be used for visualizing species trait data.
contents:
- geom_phylomorpho
- disparity_through_time
- panel.disparity
- coord_trans_xy
- title: Plotting temporal data
desc: >
These functions can be used for visualizing categorical temporal data.
contents:
- geom_points_range
- stat_points_range
- facet_grid_color
- facet_wrap_color
- title: Plotting geologic data
desc: >
These functions can be used for visualizing geologic/stratigraphic data.
contents:
- grid.pattern_geo
- geo_pattern
- scale_fill_geopattern
- title: Combining and arranging plots
desc: >
These functions can be used to combine and arrange plots into
publishable-quality figures.
contents:
- ggarrange2
- gtable_frame2