| ... | ... |
@@ -344,9 +344,16 @@ |
| 344 | 344 |
<h1>ggtree: visualization and annotation of phylogenetic trees </h1> |
| 345 | 345 |
|
| 346 | 346 |
<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> |
| 347 |
+<div id="plea-to-against-bmc" class="section level2"> |
|
| 348 |
+<h2>Plea to against BMC</h2> |
|
| 349 |
+<blockquote class="twitter-tweet"><p lang="en" dir="ltr">BMC journal protects paper of plagiarism <a href="https://t.co/FfSv7dPFXV">https://t.co/FfSv7dPFXV</a> <a href="https://twitter.com/RetractionWatch?ref_src=twsrc%5Etfw">@RetractionWatch</a> <a href="https://twitter.com/C0PE?ref_src=twsrc%5Etfw">@C0PE</a></p>— Guangchuang Yu (@guangchuangyu) <a href="https://twitter.com/guangchuangyu/status/928836702998638592?ref_src=twsrc%5Etfw">November 10, 2017</a></blockquote> |
|
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+<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
|
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+ |
|
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+<hr /> |
|
| 347 | 353 |
<p><img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/ggtree/ggtree.png" height="200" align="right" /></p> |
| 348 |
-<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.10.0-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.11.0-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-20978/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-1156/month-blue.svg?style=flat" alt="month" /></a></p> |
|
| 354 |
+<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.10.0-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.11.0-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-21118/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-1156/month-blue.svg?style=flat" alt="month" /></a></p> |
|
| 349 | 355 |
<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> |
| 356 |
+</div> |
|
| 350 | 357 |
<div id="authors" class="section level2"> |
| 351 | 358 |
<h2><i class="fa fa-user"></i> Authors</h2> |
| 352 | 359 |
<p>Guangchuang Yu and Tommy Tsan-Yuk Lam, School of Public Health, The University of Hong Kong.</p> |
| ... | ... |
@@ -354,7 +361,7 @@ |
| 354 | 361 |
<div id="citation" class="section level2"> |
| 355 | 362 |
<h2><i class="fa fa-book"></i> Citation</h2> |
| 356 | 363 |
<p>Please cite the following article when using <code>ggtree</code>:</p> |
| 357 |
-<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-337-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-45-blue.svg?style=flat" alt="citation" /></a></p> |
|
| 364 |
+<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-336-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-47-blue.svg?style=flat" alt="citation" /></a></p> |
|
| 358 | 365 |
<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> |
| 359 | 366 |
</div> |
| 360 | 367 |
<div id="featured-articles" class="section level2"> |
| ... | ... |
@@ -18,8 +18,9 @@ |
| 18 | 18 |
<pubDate>Thu, 06 Jul 2017 12:08:13 +0100</pubDate> |
| 19 | 19 |
|
| 20 | 20 |
<guid>https://guangchuangyu.github.io/ggtree/</guid> |
| 21 |
- <description>The ggtree package extending the ggplot2 package. It based on grammar of graphics and takes all the good parts of ggplot2. ggtree is designed for not only viewing phylogenetic tree but also displaying annotation data on the tree. ggtree is released within the Bioconductor project and the source code is hosted on GitHub. |
|
| 22 |
- Authors Guangchuang Yu and Tommy Tsan-Yuk Lam, School of Public Health, The University of Hong Kong.</description> |
|
| 21 |
+ <description>Plea to against BMC BMC journal protects paper of plagiarism https://t.co/FfSv7dPFXV @RetractionWatch @C0PE |
|
| 22 |
+&mdash; Guangchuang Yu (@guangchuangyu) November 10, 2017 |
|
| 23 |
+The ggtree package extending the ggplot2 package. It based on grammar of graphics and takes all the good parts of ggplot2. ggtree is designed for not only viewing phylogenetic tree but also displaying annotation data on the tree. ggtree is released within the Bioconductor project and the source code is hosted on GitHub.</description> |
|
| 23 | 24 |
</item> |
| 24 | 25 |
|
| 25 | 26 |
<item> |
| ... | ... |
@@ -352,7 +352,7 @@ |
| 352 | 352 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 353 | 353 |
<blockquote class="twitter-tweet"><p lang="en" dir="ltr">New Post: Plotting a Sequential Binary Partition on a Tree in R <a href="https://twitter.com/alex_washburne?ref_src=twsrc%5Etfw">@alex_washburne</a> <a href="https://twitter.com/guangchuangyu?ref_src=twsrc%5Etfw">@guangchuangyu</a> <a href="https://t.co/6jQKMof5aW">https://t.co/6jQKMof5aW</a></p>— Justin Silverman (@inschool4life) <a href="https://twitter.com/inschool4life/status/910671384069722112?ref_src=twsrc%5Etfw">September 21, 2017</a></blockquote> |
| 354 | 354 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 355 |
-<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&ref_src=twsrc%5Etfw">#rstats</a> <a href="https://twitter.com/hashtag/phdchat?src=hash&ref_src=twsrc%5Etfw">#phdchat</a> <a href="https://t.co/ndmRitxpeH">https://t.co/ndmRitxpeH</a></p>— Jean (@JeanManguy) <a href="https://twitter.com/JeanManguy/status/903786057182957568?ref_src=twsrc%5Etfw">September 2, 2017</a></blockquote> |
|
| 355 |
+<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&ref_src=twsrc%5Etfw">#rstats</a> <a href="https://twitter.com/hashtag/phdchat?src=hash&ref_src=twsrc%5Etfw">#phdchat</a> <a href="https://t.co/ndmRitxpeH">https://t.co/ndmRitxpeH</a></p>— Jean 👨💻 (@JeanManguy) <a href="https://twitter.com/JeanManguy/status/903786057182957568?ref_src=twsrc%5Etfw">September 2, 2017</a></blockquote> |
|
| 356 | 356 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 357 | 357 |
<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>— Nathan Brouwer (@lobrowR) <a href="https://twitter.com/lobrowR/status/899635001247059969?ref_src=twsrc%5Etfw">August 21, 2017</a></blockquote> |
| 358 | 358 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| ... | ... |
@@ -382,7 +382,7 @@ |
| 382 | 382 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 383 | 383 |
<blockquote class="twitter-tweet"><p lang="en" dir="ltr">OMG SO USEFUL! "Phylogenetic trees in R using ggtree" <a href="https://t.co/Yr8HNdWXV0">https://t.co/Yr8HNdWXV0</a></p>— Stephen Taerum (@BrahStevovo) <a href="https://twitter.com/BrahStevovo/status/829398997735313408?ref_src=twsrc%5Etfw">February 8, 2017</a></blockquote> |
| 384 | 384 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 385 |
-<blockquote class="twitter-tweet"><p lang="en" dir="ltr">I like ggtree to plot phylogenetic trees and annotate them. And I haven't found any other tools as customizable as ggtree</p>— Le Nématode (@LeNematode) <a href="https://twitter.com/LeNematode/status/824264788456984576?ref_src=twsrc%5Etfw">January 25, 2017</a></blockquote> |
|
| 385 |
+<blockquote class="twitter-tweet"><p lang="en" dir="ltr">I like ggtree to plot phylogenetic trees and annotate them. And I haven't found any other tools as customizable as ggtree</p>— Matthias G. (@LeNematode) <a href="https://twitter.com/LeNematode/status/824264788456984576?ref_src=twsrc%5Etfw">January 25, 2017</a></blockquote> |
|
| 386 | 386 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 387 | 387 |
<blockquote class="twitter-tweet"><p lang="en" dir="ltr">The R <a href="https://twitter.com/Bioconductor?ref_src=twsrc%5Etfw">@Bioconductor</a> package <a href="https://twitter.com/hashtag/ggtree?src=hash&ref_src=twsrc%5Etfw">#ggtree</a> is now published in <a href="https://twitter.com/MethodsEcolEvol?ref_src=twsrc%5Etfw">@MethodsEcolEvol</a> <a href="https://t.co/6fvSRQo2CC">https://t.co/6fvSRQo2CC</a> <a href="https://twitter.com/hashtag/evomics2017?src=hash&ref_src=twsrc%5Etfw">#evomics2017</a> <a href="https://t.co/Dwq1DD84A2">pic.twitter.com/Dwq1DD84A2</a></p>— Elin Videvall (@ElinVidevall) <a href="https://twitter.com/ElinVidevall/status/822383911258890242?ref_src=twsrc%5Etfw">January 20, 2017</a></blockquote> |
| 388 | 388 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| ... | ... |
@@ -400,7 +400,7 @@ |
| 400 | 400 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 401 | 401 |
<blockquote class="twitter-tweet"><p lang="en" dir="ltr">am quite liking <a href="https://twitter.com/hashtag/ggtree?src=hash&ref_src=twsrc%5Etfw">#ggtree</a> <a href="https://twitter.com/hashtag/rstats?src=hash&ref_src=twsrc%5Etfw">#rstats</a> <a href="https://twitter.com/hashtag/ggplot?src=hash&ref_src=twsrc%5Etfw">#ggplot</a> <a href="https://t.co/hvywS2z4ps">pic.twitter.com/hvywS2z4ps</a></p>— Nicholas E Ilott (@IlottNick) <a href="https://twitter.com/IlottNick/status/788751417746059264?ref_src=twsrc%5Etfw">October 19, 2016</a></blockquote> |
| 402 | 402 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 403 |
-<blockquote class="twitter-tweet"><p lang="en" dir="ltr">Treespace visualization of a heuristic best tree search in <a href="https://twitter.com/hashtag/R?src=hash&ref_src=twsrc%5Etfw">#R</a> package <a href="https://twitter.com/hashtag/ggtree?src=hash&ref_src=twsrc%5Etfw">#ggtree</a> <a href="https://twitter.com/hashtag/phylogenetics?src=hash&ref_src=twsrc%5Etfw">#phylogenetics</a> <a href="https://t.co/hnSJpIABql">pic.twitter.com/hnSJpIABql</a></p>— Alex DamiánSerrano ⑂ (@antropoteuthis) <a href="https://twitter.com/antropoteuthis/status/693123105707986944?ref_src=twsrc%5Etfw">January 29, 2016</a></blockquote> |
|
| 403 |
+<blockquote class="twitter-tweet"><p lang="en" dir="ltr">Treespace visualization of a heuristic best tree search in <a href="https://twitter.com/hashtag/R?src=hash&ref_src=twsrc%5Etfw">#R</a> package <a href="https://twitter.com/hashtag/ggtree?src=hash&ref_src=twsrc%5Etfw">#ggtree</a> <a href="https://twitter.com/hashtag/phylogenetics?src=hash&ref_src=twsrc%5Etfw">#phylogenetics</a> <a href="https://t.co/hnSJpIABql">pic.twitter.com/hnSJpIABql</a></p>— Alejandro Damián Serrano ⑂🌊🔬 (@antropoteuthis) <a href="https://twitter.com/antropoteuthis/status/693123105707986944?ref_src=twsrc%5Etfw">January 29, 2016</a></blockquote> |
|
| 404 | 404 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
| 405 | 405 |
<blockquote class="twitter-tweet"><p lang="en" dir="ltr"><a href="https://twitter.com/guangchuangyu?ref_src=twsrc%5Etfw">@guangchuangyu</a> Updated to latest <a href="https://twitter.com/hashtag/ggtree?src=hash&ref_src=twsrc%5Etfw">#ggtree</a> and <a href="https://twitter.com/hashtag/ggplot2?src=hash&ref_src=twsrc%5Etfw">#ggplot2</a> and very impressed! Any ideas on using geom_label with tip labels to add box/fill?</p>— Jo Williams-Newkirk (@ajwnewkirk) <a href="https://twitter.com/ajwnewkirk/status/691762302492790788?ref_src=twsrc%5Etfw">January 25, 2016</a></blockquote> |
| 406 | 406 |
<script async src="https://platform.twitter.com/widgets.js" charset="utf-8"></script> |
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@@ -8,9 +8,14 @@ weight: 1 |
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| 9 | 9 |
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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> |
| 11 |
+<div id="plea-to-against-bmc" class="section level2"> |
|
| 12 |
+<h2>Plea to against BMC</h2> |
|
| 13 |
+{{% tweet "928836702998638592" %}}
|
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| 14 |
+<hr /> |
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| 11 | 15 |
<p><img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/ggtree/ggtree.png" height="200" align="right" /></p> |
| 12 |
-<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.10.0-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.11.0-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-20978/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-1156/month-blue.svg?style=flat" alt="month" /></a></p> |
|
| 16 |
+<p><a href="https://bioconductor.org/packages/ggtree"><img src="https://img.shields.io/badge/release%20version-1.10.0-blue.svg?style=flat" alt="releaseVersion" /></a> <a href="https://github.com/guangchuangyu/ggtree"><img src="https://img.shields.io/badge/devel%20version-1.11.0-blue.svg?style=flat" alt="develVersion" /></a> <a href="https://bioconductor.org/packages/stats/bioc/ggtree"><img src="https://img.shields.io/badge/downloads-21118/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-1156/month-blue.svg?style=flat" alt="month" /></a></p> |
|
| 13 | 17 |
<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> |
| 18 |
+</div> |
|
| 14 | 19 |
<div id="authors" class="section level2"> |
| 15 | 20 |
<h2><i class="fa fa-user"></i> Authors</h2> |
| 16 | 21 |
<p>Guangchuang Yu and Tommy Tsan-Yuk Lam, School of Public Health, The University of Hong Kong.</p> |
| ... | ... |
@@ -18,7 +23,7 @@ weight: 1 |
| 18 | 23 |
<div id="citation" class="section level2"> |
| 19 | 24 |
<h2><i class="fa fa-book"></i> Citation</h2> |
| 20 | 25 |
<p>Please cite the following article when using <code>ggtree</code>:</p> |
| 21 |
-<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-337-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-45-blue.svg?style=flat" alt="citation" /></a></p> |
|
| 26 |
+<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-336-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-47-blue.svg?style=flat" alt="citation" /></a></p> |
|
| 22 | 27 |
<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> |
| 23 | 28 |
</div> |
| 24 | 29 |
<div id="featured-articles" class="section level2"> |
| ... | ... |
@@ -7,6 +7,15 @@ weight: 1 |
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|
| 8 | 8 |
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| 10 |
+## Plea to against BMC |
|
| 11 |
+ |
|
| 12 |
+```{r echo=FALSE}
|
|
| 13 |
+blogdown::shortcode('tweet', '928836702998638592')
|
|
| 14 |
+``` |
|
| 15 |
+ |
|
| 16 |
+---- |
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+ |
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+ |
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| 10 | 19 |
<link rel="stylesheet" href="https://guangchuangyu.github.io/css/font-awesome.min.css"> |
| 11 | 20 |
<link rel="stylesheet" href="https://guangchuangyu.github.io/css/academicons.min.css"> |
| 12 | 21 |
|
