update pkgdown build site and documentation

huizezhang-sherry · Aug 6, 2022 · fd13043 · fd13043
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -11,7 +11,7 @@ Authors@R: c(
 Description: Diagnostic plots for optimisation, with a focus on projection pursuit. These show paths the optimiser 
     takes in the high-dimensional space in multiple ways: by reducing the dimension using principal component analysis, and
     also using the tour to show the path on the high-dimensional space. Several botanical colour palettes are included, reflecting the 
-    name of the package. A paper describing the methodology can be found at https://journal.r-project.org/archive/2021/RJ-2021-105/index.html.
+    name of the package. A paper describing the methodology can be found at <https://journal.r-project.org/archive/2021/RJ-2021-105/index.html>.
 License: MIT + file LICENSE
 Encoding: UTF-8
 LazyData: true
@@ -32,7 +32,7 @@ Imports:
     ggrepel,
     ggforce,
     tidyr
-RoxygenNote: 7.1.2
+RoxygenNote: 7.2.0
 Depends: 
     R (>= 2.10)
 Suggests: 

diff --git a/README.Rmd b/README.Rmd
@@ -19,10 +19,9 @@ knitr::opts_chunk$set(
 # ferrn <a href='https://huizezhang-sherry.github.io/ferrn/'><img src='man/figures/logo.png' align="right" height="138.5" /></a>
 <!-- badges: start -->
 [![R build status](https://github.com/huizezhang-sherry/ferrn/workflows/R-CMD-check/badge.svg)](https://github.com/huizezhang-sherry/ferrn/actions)
-[![Codecov test coverage](https://codecov.io/gh/huizezhang-sherry/ferrn/branch/master/graph/badge.svg)](https://codecov.io/gh/huizezhang-sherry/ferrn?branch=master)
 <!-- badges: end -->
 
-The **ferrn** package extracts key components in the data object collected by the guided tour optimisation, and produces diagnostic plots. An associated paper can be found at https://arxiv.org/abs/2104.03448.
+The **ferrn** package extracts key components in the data object collected by the guided tour optimisation, and produces diagnostic plots. An associated paper can be found at <https://journal.r-project.org/archive/2021/RJ-2021-105/index.html>.
 
 ## Installation
 

diff --git a/README.md b/README.md
@@ -7,14 +7,12 @@
 
 [![R build
 status](https://github.com/huizezhang-sherry/ferrn/workflows/R-CMD-check/badge.svg)](https://github.com/huizezhang-sherry/ferrn/actions)
-[![Codecov test
-coverage](https://codecov.io/gh/huizezhang-sherry/ferrn/branch/master/graph/badge.svg)](https://codecov.io/gh/huizezhang-sherry/ferrn?branch=master)
 <!-- badges: end -->
 
 The **ferrn** package extracts key components in the data object
 collected by the guided tour optimisation, and produces diagnostic
 plots. An associated paper can be found at
-<https://arxiv.org/abs/2104.03448>.
+<https://journal.r-project.org/archive/2021/RJ-2021-105/index.html>.
 
 ## Installation
 
@@ -100,7 +98,5 @@ bind_rows(holes_1d_geo, holes_1d_better) %>%
 ```
 
 <p align="center">
-
 <img src="man/figures/tour.gif">
-
 </p>
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -2,7 +2,7 @@ pandoc: '2.18'
 pkgdown: 2.0.3
 pkgdown_sha: ~
 articles: {}
-last_built: 2022-07-19T06:45Z
+last_built: 2022-08-06T13:13Z
 urls:
   reference: https://huizezhang-sherry.github.io/ferrn/reference
   article: https://huizezhang-sherry.github.io/ferrn/articles

diff --git a/docs/reference/data.html b/docs/reference/data.html
diff --git a/docs/reference/ferrn-package.html b/docs/reference/ferrn-package.html
diff --git a/docs/reference/figures/README-pca-plot-1.png b/docs/reference/figures/README-pca-plot-1.png
diff --git a/docs/reference/figures/README-trace-plot-1.png b/docs/reference/figures/README-trace-plot-1.png
diff --git a/man/data.Rd b/man/data.Rd
diff --git a/man/ferrn-package.Rd b/man/ferrn-package.Rd
diff --git a/man/figures/README-pca-plot-1.png b/man/figures/README-pca-plot-1.png
diff --git a/man/figures/README-trace-plot-1.png b/man/figures/README-trace-plot-1.png