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@@ -4,9 +4,9 @@ ggtree: an R package for visualization and annotation of phylogenetic trees with |
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<img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/ggtree/ggtree.png" height="200" align="right" /> |
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-[](https://bioconductor.org/packages/ggtree) [](https://github.com/guangchuangyu/ggtree) [](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#since) [](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) |
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+[](https://bioconductor.org/packages/ggtree) [](https://github.com/guangchuangyu/ggtree) [](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#since) [](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) |
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-[](http://www.repostatus.org/#active) [](https://codecov.io/gh/GuangchuangYu/ggtree) [](https://github.com/GuangchuangYu/ggtree/commits/master) [](https://github.com/GuangchuangYu/ggtree/network) [](https://github.com/GuangchuangYu/ggtree/stargazers) [](https://awesome-r.com/#awesome-r-graphic-displays) |
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+[](http://www.repostatus.org/#active) [](https://codecov.io/gh/GuangchuangYu/ggtree) [](https://github.com/GuangchuangYu/ggtree/commits/master) [](https://github.com/GuangchuangYu/ggtree/network) [](https://github.com/GuangchuangYu/ggtree/stargazers) [](https://awesome-r.com/#awesome-r-graphic-displays) |
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[](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#archives) [](https://bioconductor.org/checkResults/devel/bioc-LATEST/ggtree/) [](https://travis-ci.org/GuangchuangYu/ggtree) [](https://ci.appveyor.com/project/GuangchuangYu/ggtree) [](#backers) [](#sponsors) |
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@@ -27,7 +27,7 @@ Please cite the following article when using `ggtree`: |
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**G Yu**, DK Smith, H Zhu, Y Guan, TTY Lam<sup>\*</sup>. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. ***Methods in Ecology and Evolution***. 2017, 8(1):28-36. |
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-[](http://dx.doi.org/10.1111/2041-210X.12628) [](https://www.altmetric.com/details/10533079) [](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627) |
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+[](http://dx.doi.org/10.1111/2041-210X.12628) [](https://www.altmetric.com/details/10533079) [](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627) |
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------------------------------------------------------------------------ |
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@@ -37,7 +37,7 @@ Please cite the following article when using `ggtree`: |
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### Download stats |
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-[](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) |
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+[](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) |
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<img src="docs/images/dlstats.png" width="890"/> |
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<p><link rel="stylesheet" href="https://guangchuangyu.github.io/css/font-awesome.min.css"> <link rel="stylesheet" href="https://guangchuangyu.github.io/css/academicons.min.css"></p> |
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<p><img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/ggtree/ggtree.png" height="200" align="right" /></p> |
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-<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.8.2-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.9.4-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-18441/total-blue.svg?style=flat" alt="total" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-834/month-blue.svg?style=flat" alt="month" /></a></p> |
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+<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.8.2-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.9.4-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-18565/total-blue.svg?style=flat" alt="total" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-834/month-blue.svg?style=flat" alt="month" /></a></p> |
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<p>The <code>ggtree</code> package extending the <em>ggplot2</em> package. It based on grammar of graphics and takes all the good parts of <em>ggplot2</em>. <em>ggtree</em> is designed for not only viewing phylogenetic tree but also displaying annotation data on the tree. <em>ggtree</em> is released within the <a href="https://bioconductor.org/packages/ggtree/">Bioconductor</a> project and the source code is hosted on <a href="https://github.com/GuangchuangYu/ggtree"><i class="fa fa-github fa-lg"></i> GitHub</a>.</p> |
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<div id="authors" class="section level2"> |
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<h2><i class="fa fa-user"></i> Authors</h2> |
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<div id="citation" class="section level2"> |
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<h2><i class="fa fa-book"></i> Citation</h2> |
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<p>Please cite the following article when using <code>ggtree</code>:</p> |
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-<p><a href="http://dx.doi.org/10.1111/2041-210X.12628"><img src="https://img.shields.io/badge/doi-10.1111/2041--210X.12628-blue.svg?style=flat" alt="doi" /></a> <a href="https://www.altmetric.com/details/10533079"><img src="https://img.shields.io/badge/Altmetric-346-blue.svg?style=flat" alt="Altmetric" /></a> <a href="https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627"><img src="https://img.shields.io/badge/cited%20by-35-blue.svg?style=flat" alt="citation" /></a></p> |
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+<p><a href="http://dx.doi.org/10.1111/2041-210X.12628"><img src="https://img.shields.io/badge/doi-10.1111/2041--210X.12628-blue.svg?style=flat" alt="doi" /></a> <a href="https://www.altmetric.com/details/10533079"><img src="https://img.shields.io/badge/Altmetric-345-blue.svg?style=flat" alt="Altmetric" /></a> <a href="https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627"><img src="https://img.shields.io/badge/cited%20by-36-blue.svg?style=flat" alt="citation" /></a></p> |
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<p><strong>G Yu</strong>, DK Smith, H Zhu, Y Guan, TTY Lam<sup>*</sup>. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. <strong><em>Methods in Ecology and Evolution</em></strong>. 2017, 8(1):28-36.</p> |
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</div> |
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<div id="featured-articles" class="section level2"> |
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@@ -78,10 +78,10 @@ http://dx.doi.org/10.1111/2041-210X.12628 |
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<guid>https://guangchuangyu.github.io/ggtree/tweets/</guid> |
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<description>Leave me a message on |
81 |
-The ggtree package looks like a cool way to visualize hierarchical datahttps://t.co/spsqLkqeVG pic.twitter.com/GRODlrBahW |
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+blog: Introduction to ggplot2 and to ggtree 📝📈👨🔬👩🔬 #rstats #phdchat https://t.co/ndmRitxpeH |
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+&mdash; Jean (@JeanManguy) September 2, 2017 The ggtree package looks like a cool way to visualize hierarchical datahttps://t.co/spsqLkqeVG pic.twitter.com/GRODlrBahW |
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&mdash; lobrowR (@lobrowR) August 21, 2017 New ggtree-based visualization in R package phylofactor! Below are the top three factors (= 4 bins) of mammalian body mass. pic.twitter.com/ruT4OZF7gW |
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-&mdash; Alex Washburne (@alex_washburne) August 19, 2017 Possible to combine #ggjoy with #ggtree ? My gg-fu is weak. #rstats #DataViz #JoyPlot https://t.co/4FICfER6Oa |
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-&mdash; Libby Megna (@LibbyMegna) July 29, 2017 Second post with an update on how to add tip shapes and colours to ggtree https://t.</description> |
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+&mdash; Alex Washburne (@alex_washburne) August 19, 2017 Possible to combine #ggjoy with #ggtree ?</description> |
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</item> |
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</channel> |
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<p><link rel="stylesheet" href="https://guangchuangyu.github.io/css/font-awesome.min.css"></p> |
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<p><font size="4"><strong>Leave me a message on <a href="https://twitter.com/hashtag/ggtree"><i class="fa fa-twitter fa-lg"></i></a></strong></font></p> |
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-<p><blockquote class="twitter-tweet"><p lang="en" dir="ltr">The ggtree package looks like a cool way to visualize hierarchical data<a href="https://t.co/spsqLkqeVG">https://t.co/spsqLkqeVG</a> <a href="https://t.co/GRODlrBahW">pic.twitter.com/GRODlrBahW</a></p>— lobrowR (@lobrowR) <a href="https://twitter.com/lobrowR/status/899635001247059969">August 21, 2017</a></blockquote> |
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+<p><blockquote class="twitter-tweet"><p lang="sv" dir="ltr">blog: Introduction to ggplot2 and to ggtree 📝📈👨🔬👩🔬 <a href="https://twitter.com/hashtag/rstats?src=hash">#rstats</a> <a href="https://twitter.com/hashtag/phdchat?src=hash">#phdchat</a> <a href="https://t.co/ndmRitxpeH">https://t.co/ndmRitxpeH</a></p>— Jean (@JeanManguy) <a href="https://twitter.com/JeanManguy/status/903786057182957568">September 2, 2017</a></blockquote> |
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+<script async src="//platform.twitter.com/widgets.js" charset="utf-8"></script><blockquote class="twitter-tweet"><p lang="en" dir="ltr">The ggtree package looks like a cool way to visualize hierarchical data<a href="https://t.co/spsqLkqeVG">https://t.co/spsqLkqeVG</a> <a href="https://t.co/GRODlrBahW">pic.twitter.com/GRODlrBahW</a></p>— lobrowR (@lobrowR) <a href="https://twitter.com/lobrowR/status/899635001247059969">August 21, 2017</a></blockquote> |
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348 | 349 |
<script async src="//platform.twitter.com/widgets.js" charset="utf-8"></script><blockquote class="twitter-tweet"><p lang="en" dir="ltr">New ggtree-based visualization in R package phylofactor! Below are the top three factors (= 4 bins) of mammalian body mass. <a href="https://t.co/ruT4OZF7gW">pic.twitter.com/ruT4OZF7gW</a></p>— Alex Washburne (@alex_washburne) <a href="https://twitter.com/alex_washburne/status/898729425168080897">August 19, 2017</a></blockquote> |
349 | 350 |
<script async src="//platform.twitter.com/widgets.js" charset="utf-8"></script><blockquote class="twitter-tweet"><p lang="en" dir="ltr">Possible to combine <a href="https://twitter.com/hashtag/ggjoy?src=hash">#ggjoy</a> with <a href="https://twitter.com/hashtag/ggtree?src=hash">#ggtree</a> ? My gg-fu is weak. <a href="https://twitter.com/hashtag/rstats?src=hash">#rstats</a> <a href="https://twitter.com/hashtag/DataViz?src=hash">#DataViz</a> <a href="https://twitter.com/hashtag/JoyPlot?src=hash">#JoyPlot</a> <a href="https://t.co/4FICfER6Oa">https://t.co/4FICfER6Oa</a></p>— Libby Megna (@LibbyMegna) <a href="https://twitter.com/LibbyMegna/status/891144389715783680">July 29, 2017</a></blockquote> |
350 | 351 |
<script async src="//platform.twitter.com/widgets.js" charset="utf-8"></script><blockquote class="twitter-tweet"><p lang="en" dir="ltr">Second post with an update on how to add tip shapes and colours to ggtree <a href="https://t.co/ezWF4TVQst">https://t.co/ezWF4TVQst</a></p>— Anthony Underwood (@bioinformAnt) <a href="https://twitter.com/bioinformAnt/status/883301626022375424">July 7, 2017</a></blockquote> |
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|
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<guid>https://guangchuangyu.github.io/ggtree/tweets/</guid> |
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<description>Leave me a message on |
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-The ggtree package looks like a cool way to visualize hierarchical datahttps://t.co/spsqLkqeVG pic.twitter.com/GRODlrBahW |
|
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+blog: Introduction to ggplot2 and to ggtree 📝📈👨🔬👩🔬 #rstats #phdchat https://t.co/ndmRitxpeH |
|
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+&mdash; Jean (@JeanManguy) September 2, 2017 The ggtree package looks like a cool way to visualize hierarchical datahttps://t.co/spsqLkqeVG pic.twitter.com/GRODlrBahW |
|
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&mdash; lobrowR (@lobrowR) August 21, 2017 New ggtree-based visualization in R package phylofactor! Below are the top three factors (= 4 bins) of mammalian body mass. pic.twitter.com/ruT4OZF7gW |
24 |
-&mdash; Alex Washburne (@alex_washburne) August 19, 2017 Possible to combine #ggjoy with #ggtree ? My gg-fu is weak. #rstats #DataViz #JoyPlot https://t.co/4FICfER6Oa |
|
25 |
-&mdash; Libby Megna (@LibbyMegna) July 29, 2017 Second post with an update on how to add tip shapes and colours to ggtree https://t.</description> |
|
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+&mdash; Alex Washburne (@alex_washburne) August 19, 2017 Possible to combine #ggjoy with #ggtree ?</description> |
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</item> |
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</channel> |
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<p><link rel="stylesheet" href="https://guangchuangyu.github.io/css/font-awesome.min.css"> <link rel="stylesheet" href="https://guangchuangyu.github.io/css/academicons.min.css"></p> |
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<p><img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/ggtree/ggtree.png" height="200" align="right" /></p> |
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-<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.8.2-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.9.4-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-18441/total-blue.svg?style=flat" alt="total" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-834/month-blue.svg?style=flat" alt="month" /></a></p> |
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+<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.8.2-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.9.4-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-18565/total-blue.svg?style=flat" alt="total" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-834/month-blue.svg?style=flat" alt="month" /></a></p> |
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<p>The <code>ggtree</code> package extending the <em>ggplot2</em> package. It based on grammar of graphics and takes all the good parts of <em>ggplot2</em>. <em>ggtree</em> is designed for not only viewing phylogenetic tree but also displaying annotation data on the tree. <em>ggtree</em> is released within the <a href="https://bioconductor.org/packages/ggtree/">Bioconductor</a> project and the source code is hosted on <a href="https://github.com/GuangchuangYu/ggtree"><i class="fa fa-github fa-lg"></i> GitHub</a>.</p> |
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<div id="authors" class="section level2"> |
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<h2><i class="fa fa-user"></i> Authors</h2> |
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@@ -18,7 +18,7 @@ weight: 1 |
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<div id="citation" class="section level2"> |
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<h2><i class="fa fa-book"></i> Citation</h2> |
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<p>Please cite the following article when using <code>ggtree</code>:</p> |
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-<p><a href="http://dx.doi.org/10.1111/2041-210X.12628"><img src="https://img.shields.io/badge/doi-10.1111/2041--210X.12628-blue.svg?style=flat" alt="doi" /></a> <a href="https://www.altmetric.com/details/10533079"><img src="https://img.shields.io/badge/Altmetric-346-blue.svg?style=flat" alt="Altmetric" /></a> <a href="https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627"><img src="https://img.shields.io/badge/cited%20by-35-blue.svg?style=flat" alt="citation" /></a></p> |
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+<p><a href="http://dx.doi.org/10.1111/2041-210X.12628"><img src="https://img.shields.io/badge/doi-10.1111/2041--210X.12628-blue.svg?style=flat" alt="doi" /></a> <a href="https://www.altmetric.com/details/10533079"><img src="https://img.shields.io/badge/Altmetric-345-blue.svg?style=flat" alt="Altmetric" /></a> <a href="https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627"><img src="https://img.shields.io/badge/cited%20by-36-blue.svg?style=flat" alt="citation" /></a></p> |
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<p><strong>G Yu</strong>, DK Smith, H Zhu, Y Guan, TTY Lam<sup>*</sup>. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. <strong><em>Methods in Ecology and Evolution</em></strong>. 2017, 8(1):28-36.</p> |
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</div> |
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<div id="featured-articles" class="section level2"> |
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<p><link rel="stylesheet" href="https://guangchuangyu.github.io/css/font-awesome.min.css"></p> |
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<p><font size="4"><strong>Leave me a message on <a href="https://twitter.com/hashtag/ggtree"><i class="fa fa-twitter fa-lg"></i></a></strong></font></p> |
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-<p>{{% tweet 899635001247059969 %}}{{% tweet 898729425168080897 %}}{{% tweet 891144389715783680 %}}{{% tweet 883301626022375424 %}}{{% tweet 883246854695256064 %}}{{% tweet 877576023109390336 %}}{{% tweet 875594411584782337 %}}{{% tweet 871775262152810496 %}}{{% tweet 867408666852511744 %}}{{% tweet 857665638600507393 %}}{{% tweet 840181267542994944 %}}{{% tweet 839831849736232962 %}}{{% tweet 830023569887391744 %}}{{% tweet 829398997735313408 %}}{{% tweet 824264788456984576 %}}{{% tweet 822383911258890242 %}}{{% tweet 811666431452450816 %}}{{% tweet 811661275889549312 %}}{{% tweet 797041236867686400 %}}{{% tweet 797037016403820546 %}}{{% tweet 794278716859879424 %}}{{% tweet 831952966701678592 %}}{{% tweet 788751417746059264 %}}{{% tweet 693123105707986944 %}}{{% tweet 691762302492790788 %}}{{% tweet 687933344219312128 %}}{{% tweet 684411780412526592 %}}{{% tweet 665188011047563268 %}}{{% tweet 664040586001915904 %}}{{% tweet 639507420054749184 %}}{{% tweet 671673570259509248 %}}{{% tweet 667490462693912576 %}}{{% tweet 660278158663401473 %}}{{% tweet 641251456595685376 %}}{{% tweet 559734740488818688 %}}{{% tweet 559762891478667264 %}}{{% tweet 561514846291001344 %}}{{% tweet 559542705663905793 %}}{{% tweet 561056244782227456 %}}{{% tweet 664085841766195200 %}}{{% tweet 664431087683260416 %}}{{% tweet 667706456045694976 %}}{{% tweet 663937183791759360 %}}{{% tweet 663771499589861376 %}}{{% tweet 667433534756397057 %}}{{% tweet 640573716733169664 %}}{{% tweet 664407764001779712 %}}{{% tweet 630500659960254464 %}}{{% tweet 547497335412899840 %}}{{% tweet 610364467939913728 %}}</p> |
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+<p>{{% tweet 903786057182957568 %}}{{% tweet 899635001247059969 %}}{{% tweet 898729425168080897 %}}{{% tweet 891144389715783680 %}}{{% tweet 883301626022375424 %}}{{% tweet 883246854695256064 %}}{{% tweet 877576023109390336 %}}{{% tweet 875594411584782337 %}}{{% tweet 871775262152810496 %}}{{% tweet 867408666852511744 %}}{{% tweet 857665638600507393 %}}{{% tweet 840181267542994944 %}}{{% tweet 839831849736232962 %}}{{% tweet 830023569887391744 %}}{{% tweet 829398997735313408 %}}{{% tweet 824264788456984576 %}}{{% tweet 822383911258890242 %}}{{% tweet 811666431452450816 %}}{{% tweet 811661275889549312 %}}{{% tweet 797041236867686400 %}}{{% tweet 797037016403820546 %}}{{% tweet 794278716859879424 %}}{{% tweet 831952966701678592 %}}{{% tweet 788751417746059264 %}}{{% tweet 693123105707986944 %}}{{% tweet 691762302492790788 %}}{{% tweet 687933344219312128 %}}{{% tweet 684411780412526592 %}}{{% tweet 665188011047563268 %}}{{% tweet 664040586001915904 %}}{{% tweet 639507420054749184 %}}{{% tweet 671673570259509248 %}}{{% tweet 667490462693912576 %}}{{% tweet 660278158663401473 %}}{{% tweet 641251456595685376 %}}{{% tweet 559734740488818688 %}}{{% tweet 559762891478667264 %}}{{% tweet 561514846291001344 %}}{{% tweet 559542705663905793 %}}{{% tweet 561056244782227456 %}}{{% tweet 664085841766195200 %}}{{% tweet 664431087683260416 %}}{{% tweet 667706456045694976 %}}{{% tweet 663937183791759360 %}}{{% tweet 663771499589861376 %}}{{% tweet 667433534756397057 %}}{{% tweet 640573716733169664 %}}{{% tweet 664407764001779712 %}}{{% tweet 630500659960254464 %}}{{% tweet 547497335412899840 %}}{{% tweet 610364467939913728 %}}</p> |