git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@119011 bc3139a8-67e5-0310-9ffc-ced21a209358
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Package: ggtree |
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Type: Package |
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-Title: a phylogenetic tree viewer for different types of tree annotations |
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+Title: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data |
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Version: 1.5.6 |
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Author: Guangchuang Yu and Tommy Tsan-Yuk Lam |
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Maintainer: Guangchuang Yu <guangchuangyu@gmail.com> |
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-Description: ggtree extends the ggplot2 plotting system which implemented the |
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- grammar of graphics. ggtree is designed for visualizing phylogenetic tree |
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- and different types of associated annotation data. |
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+Description: 'ggtree' extends the 'ggplot2' plotting system which implemented the grammar of graphics. |
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+ 'ggtree' is designed for visualization and annotation of phylogenetic trees with their covariates and other associated data. |
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Depends: |
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- R (>= 3.2.0), |
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+ R (>= 3.3.0), |
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ggplot2 (>= 2.0.0) |
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Imports: |
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ape, |
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CHANGES IN VERSION 1.5.6 |
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------------------------ |
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+ o identify method for ggtree <2016-06-28, Tue> |
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+ + see https://guangchuangyu.github.io/2016/06/identify-method-for-ggtree |
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o geom_balance contributed by Justin Silverman <2016-06-22, Wed> |
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+ see https://github.com/GuangchuangYu/ggtree/pull/64 |
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-# ggtree: a phylogenetic tree viewer for different types of tree annotations |
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+# ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data |
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<!--[](https://travis-ci.org/GuangchuangYu/ggtree) |
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[](https://ci.appveyor.com/project/GuangchuangYu/ggtree/branch/master)--> |
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@@ -53,7 +53,9 @@ vignette("ggtree", package = "ggtree") |
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More documents can be found in <https://guangchuangyu.github.io/ggtree>. |
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-## Bugs/Feature requests ## |
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+## Feedback ## |
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- - If you have any, [let me know](https://github.com/GuangchuangYu/ggtree/issues). Thx! |
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+ - For bugs or feature request, please post to [github issue](https://github.com/GuangchuangYu/ggtree/issues). |
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+ - For user questions, please post to [google group](https://groups.google.com/forum/#!forum/bioc-ggtree) or post to [Bioconductor support site](https://support.bioconductor.org/) or [Biostars](https://www.biostars.org/). We are following every post tagged with **ggtree**. |
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+ |
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@@ -112,11 +112,13 @@ Visualizing an annotated phylogenetic tree with numerical matrix (e.g. genotype |
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+ [ggtree utilities](ggtreeUtilities.html) |
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-More documents can be found in <http://guangchuangyu.github.io/ggtree>. |
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+More documents can be found in <https://guangchuangyu.github.io/ggtree>. |
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-# Bugs/Feature requests |
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+## Feedback ## |
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-If you have any, [let me know](https://github.com/GuangchuangYu/ggtree/issues). Thx! |
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+ - For bugs or feature request, please post to [github issue](https://github.com/GuangchuangYu/ggtree/issues). |
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+ - For user questions, please post to [google group](https://groups.google.com/forum/#!forum/bioc-ggtree) or post to [Bioconductor support site](https://support.bioconductor.org/) or [Biostars](https://www.biostars.org/). We are following every post tagged with **ggtree**. |
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+ |
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# Session info |
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@@ -319,6 +319,9 @@ ggtree(tr2) + geom_tiplab(aes(color=place)) + |
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Advance tree annotation including visualizing phylogenetic tree with associated matrix and multiple sequence alignment; annotating tree with subplots and images (especially PhyloPic). For details and examples, please refer to the [Advance Tree Annotation](advanceTreeAnnotation.html) vignette. |
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+# Interactive tree annotation |
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+ |
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+Interactive tree annotation is also possible, please refer to <https://guangchuangyu.github.io/2016/06/identify-method-for-ggtree>. |
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# References |
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``` |
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+ |
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+ |
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+# Interactive tree manipulation |
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+ |
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+Interactive tree manipulation is also possible, please refer to <https://guangchuangyu.github.io/2016/06/identify-method-for-ggtree>. |
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+ |