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update citation

Guangchuang Yu authored on 13/08/2022 09:50:20
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@@ -1,7 +1,7 @@
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 Package: ggtree
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 Type: Package
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 Title: an R package for visualization of tree and annotation data
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-Version: 3.4.1
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+Version: 3.4.2
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 Authors@R: c(
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        person("Guangchuang", "Yu",     email = "guangchuangyu@gmail.com", role = c("aut", "cre", "cph"), 
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             comment = c(ORCID = "0000-0002-6485-8781")),
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@@ -57,10 +57,10 @@ VignetteBuilder: knitr
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 ByteCompile: true
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 Encoding: UTF-8
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 License: Artistic-2.0
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-URL: https://yulab-smu.top/treedata-book/ (book), http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628 (paper)
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+URL: https://www.amazon.com/Integration-Manipulation-Visualization-Phylogenetic-Computational-ebook/dp/B0B5NLZR1Z/ (book), http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628 (paper)
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 BugReports: https://github.com/YuLab-SMU/ggtree/issues
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 Packaged: 2014-12-03 08:16:14 UTC; root
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 biocViews: Alignment, Annotation, Clustering, DataImport,
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     MultipleSequenceAlignment, Phylogenetics, ReproducibleResearch, Software, Visualization
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-RoxygenNote: 7.1.2
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+RoxygenNote: 7.2.1
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 Roxygen: list(markdown = TRUE)
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@@ -1,5 +1,17 @@
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 citHeader("To cite ggtree in publications use:")
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+citEntry(
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+    entry  = "book",
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+    title = "Data Integration, Manipulation and Visualization of Phylogenetic Treess",
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+    author = person("Guangchuang", "Yu"),
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+	publisher = "Chapman and Hall/{CRC}",
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+    year = "2022",
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+	edition = "1st edition",
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+    textVersion = paste("Guangchuang Yu. (2022).",
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+                        "Data Integration, Manipulation and Visualization of Phylogenetic Trees (1st edition).",
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+                        "Chapman and Hall/CRC.")   
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+)
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+
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 citEntry(
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     entry  = "article",
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     title = "Using ggtree to Visualize Data on Tree-Like Structures",
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@@ -68,7 +68,5 @@ For demonstration of this function, please refer to chapter 8.3 of
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 \url{http://yulab-smu.top/treedata-book/index.html} by Guangchuang Yu.
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 }
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 \author{
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-Guangchuang Yu
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-
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 Guangchuang Yu
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 }
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@@ -21,12 +21,14 @@ tree as data.frame with equal angle layout.
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 }
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 \references{
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 The following aglorithm aims to implement the vague description of the "Equal-daylight Algorithm"
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-in "Inferring Phylogenies" pp 582-584 by Joseph Felsenstein.\preformatted{Leafs are subtrees with no children
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+in "Inferring Phylogenies" pp 582-584 by Joseph Felsenstein.
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+
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+\if{html}{\out{<div class="sourceCode">}}\preformatted{Leafs are subtrees with no children
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 Initialise tree using equal angle algorithm
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 tree_df = equal_angle(tree)
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 nodes = get list of nodes in tree_df breadth-first
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 nodes = remove tip nodes.
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-}
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+}\if{html}{\out{</div>}}
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 }
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@@ -52,6 +52,6 @@ below to see their documentation.
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   \item{magrittr}{\code{\link[magrittr:pipe]{\%>\%}}}
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-  \item{tidytree}{\code{\link[tidytree]{MRCA}}, \code{\link[tidytree]{groupClade}}, \code{\link[tidytree]{groupOTU}}, \code{\link[tidytree]{nodeid}}, \code{\link[tidytree]{nodelab}}}
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+  \item{tidytree}{\code{\link[tidytree]{groupClade}}, \code{\link[tidytree]{groupOTU}}, \code{\link[tidytree]{MRCA}}, \code{\link[tidytree]{nodeid}}, \code{\link[tidytree]{nodelab}}}
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 }}
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