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new citation

GuangchuangYu authored on 21/01/2017 03:49:09
Showing 9 changed files

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@@ -68,7 +68,7 @@ For details, please visit our project website, <https://guangchuangyu.github.io/
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 ```{r echo=F, comment=NA}
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 d <- get_article_cite_history('DO5oG40AAAAJ', 'HtEfBTGE9r8C')
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-txtplot(d$year, d$cites, xlim=c(2015, 2017))
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+txtplot(d$year, d$cites)
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 ```
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 ### Download stats
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@@ -4,7 +4,7 @@ ggtree: an R package for visualization and annotation of phylogenetic trees with
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 [![releaseVersion](https://img.shields.io/badge/release%20version-1.6.7-green.svg?style=flat)](https://bioconductor.org/packages/ggtree) [![develVersion](https://img.shields.io/badge/devel%20version-1.7.7-green.svg?style=flat)](https://github.com/GuangchuangYu/ggtree) [![Bioc](http://www.bioconductor.org/shields/years-in-bioc/ggtree.svg)](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#since) [![total](https://img.shields.io/badge/downloads-20046/total-blue.svg?style=flat)](https://bioconductor.org/packages/stats/bioc/ggtree) [![month](https://img.shields.io/badge/downloads-1177/month-blue.svg?style=flat)](https://bioconductor.org/packages/stats/bioc/ggtree) <img src="logo.png" align="right" />
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-[![Project Status: Active - The project has reached a stable, usable state and is being actively developed.](http://www.repostatus.org/badges/latest/active.svg)](http://www.repostatus.org/#active) [![codecov](https://codecov.io/gh/GuangchuangYu/ggtree/branch/master/graph/badge.svg)](https://codecov.io/gh/GuangchuangYu/ggtree) [![Last-changedate](https://img.shields.io/badge/last%20change-2017--01--20-green.svg)](https://github.com/GuangchuangYu/ggtree/commits/master) [![GitHub forks](https://img.shields.io/github/forks/GuangchuangYu/ggtree.svg)](https://github.com/GuangchuangYu/ggtree/network) [![GitHub stars](https://img.shields.io/github/stars/GuangchuangYu/ggtree.svg)](https://github.com/GuangchuangYu/ggtree/stargazers) [![Awesome](https://cdn.rawgit.com/sindresorhus/awesome/d7305f38d29fed78fa85652e3a63e154dd8e8829/media/badge.svg)](https://awesome-r.com/#awesome-r-graphic-displays)
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+[![Project Status: Active - The project has reached a stable, usable state and is being actively developed.](http://www.repostatus.org/badges/latest/active.svg)](http://www.repostatus.org/#active) [![codecov](https://codecov.io/gh/GuangchuangYu/ggtree/branch/master/graph/badge.svg)](https://codecov.io/gh/GuangchuangYu/ggtree) [![Last-changedate](https://img.shields.io/badge/last%20change-2017--01--21-green.svg)](https://github.com/GuangchuangYu/ggtree/commits/master) [![GitHub forks](https://img.shields.io/github/forks/GuangchuangYu/ggtree.svg)](https://github.com/GuangchuangYu/ggtree/network) [![GitHub stars](https://img.shields.io/github/stars/GuangchuangYu/ggtree.svg)](https://github.com/GuangchuangYu/ggtree/stargazers) [![Awesome](https://cdn.rawgit.com/sindresorhus/awesome/d7305f38d29fed78fa85652e3a63e154dd8e8829/media/badge.svg)](https://awesome-r.com/#awesome-r-graphic-displays)
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 [![platform](http://www.bioconductor.org/shields/availability/devel/ggtree.svg)](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#archives) [![Build Status](http://www.bioconductor.org/shields/build/devel/bioc/ggtree.svg)](https://bioconductor.org/checkResults/devel/bioc-LATEST/ggtree/) [![Linux/Mac Travis Build Status](https://img.shields.io/travis/GuangchuangYu/ggtree/master.svg?label=Mac%20OSX%20%26%20Linux)](https://travis-ci.org/GuangchuangYu/ggtree) [![AppVeyor Build Status](https://img.shields.io/appveyor/ci/Guangchuangyu/ggtree/master.svg?label=Windows)](https://ci.appveyor.com/project/GuangchuangYu/ggtree) [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-green.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-ggtree/README.html)
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@@ -18,7 +18,7 @@ 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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-[![doi](https://img.shields.io/badge/doi-10.1111/2041--210X.12628-green.svg?style=flat)](http://dx.doi.org/10.1111/2041-210X.12628) [![citation](https://img.shields.io/badge/cited%20by-1-green.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627) [![Altmetric](https://img.shields.io/badge/Altmetric-299-green.svg?style=flat)](https://www.altmetric.com/details/10533079)
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+[![doi](https://img.shields.io/badge/doi-10.1111/2041--210X.12628-green.svg?style=flat)](http://dx.doi.org/10.1111/2041-210X.12628) [![citation](https://img.shields.io/badge/cited%20by-2-green.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627) [![Altmetric](https://img.shields.io/badge/Altmetric-309-green.svg?style=flat)](https://www.altmetric.com/details/10533079)
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 ------------------------------------------------------------------------
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@@ -31,23 +31,23 @@ For details, please visit our project website, <https://guangchuangyu.github.io/
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 ### Citation
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-[![citation](https://img.shields.io/badge/cited%20by-1-green.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
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+[![citation](https://img.shields.io/badge/cited%20by-2-green.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
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-      2015         2015.5        2016        2016.5         2017
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+    0.6 +-+---------+---------+---------+---------+--------+---+
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+        2016     2016.2    2016.4    2016.6    2016.8    2017   
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 ### Download stats
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             <div class="col-md-3"><div class="bs-sidebar hidden-print affix well" role="complementary">
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     <ul class="nav bs-sidenav">
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-        <li class="main active"><a href="#2016"> 2016</a></li>
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+        <li class="main active"><a href="#2017"> 2017</a></li>
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+        
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+        <li class="main "><a href="#2016"> 2016</a></li>
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         <li class="main "><a href="#2015"> 2015</a></li>
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@@ -214,7 +217,7 @@
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 <p><link rel="stylesheet" href="https://guangchuangyu.github.io/css/font-awesome.min.css"></p>
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 <p><a href="https://github.com/GuangchuangYu/featured_img">Let us know</a> if you have published using <code>ggtree</code> and your publication will be featured here.</p>
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-<p><a href="https://scholar.google.com.hk/scholar?oi=bibs&amp;hl=en&amp;cites=7268358477862164627"><img alt="citation" src="https://img.shields.io/badge/cited%20by-1-blue.svg?style=flat" /></a></p>
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+<p><a href="https://scholar.google.com.hk/scholar?oi=bibs&amp;hl=en&amp;cites=7268358477862164627"><img alt="citation" src="https://img.shields.io/badge/cited%20by-2-blue.svg?style=flat" /></a></p>
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 <p><link rel='stylesheet' href=https://guangchuangyu.github.io/resume/css/morris.css>
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 <script src='https://guangchuangyu.github.io/resume/css/jquery.min.js' type='text/javascript'></script>
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 <script src='https://guangchuangyu.github.io/resume/css/raphael-min.js' type='text/javascript'></script>
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@@ -229,11 +232,11 @@
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   }  
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   </style>
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-<div id = 'chart7044272d6fbc' class = 'rChart morris'></div>
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+<div id = 'chart7ea0521d7be6' class = 'rChart morris'></div>
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 <script type='text/javascript'>
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     var chartParams = {
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- "element": "chart7044272d6fbc",
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+ "element": "chart7ea0521d7be6",
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 "width":            800,
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 "height":            400,
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 "xkey": "year",
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@@ -245,15 +248,22 @@
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  "year": 2016,
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 "cites":              1,
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 "pubid": "HtEfBTGE9r8C" 
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+},
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+{
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+ "year": 2017,
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+"cites":              1,
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+"pubid": "HtEfBTGE9r8C" 
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 } 
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 ],
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-"id": "chart7044272d6fbc",
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+"id": "chart7ea0521d7be6",
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 "labels": "cites" 
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 },
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       chartType = "Bar"
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     new Morris[chartType](chartParams)
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 </script>
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+<h2 id="2017"><i class="fa fa-calendar"></i> 2017</h2>
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+<p><a href="http://dx.doi.org/10.1073/pnas.1617959114">Phylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging</a>. <strong><em>PNAS</em></strong>, 2017</p>
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 <h2 id="2016"><i class="fa fa-calendar"></i> 2016</h2>
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 <p>Lack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient <em>Arabidopsis</em></p>
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 <p><strong>Plant Physiology</strong> May. 2016 <http:/​/​dx.​doi.​org/​10.​1104/​pp.​16.​00359></p>
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 <h2 id="citation"><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 alt="doi" src="https://img.shields.io/badge/doi-10.1111/2041--210X.12628-blue.svg?style=flat" /></a>
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-<a href="https://scholar.google.com.hk/scholar?oi=bibs&amp;hl=en&amp;cites=7268358477862164627"><img alt="citation" src="https://img.shields.io/badge/cited%20by-1-blue.svg?style=flat" /></a>
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-<a href="https://www.altmetric.com/details/10533079"><img alt="Altmetric" src="https://img.shields.io/badge/Altmetric-299-blue.svg?style=flat" /></a></p>
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+<a href="https://scholar.google.com.hk/scholar?oi=bibs&amp;hl=en&amp;cites=7268358477862164627"><img alt="citation" src="https://img.shields.io/badge/cited%20by-2-blue.svg?style=flat" /></a>
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+<a href="https://www.altmetric.com/details/10533079"><img alt="Altmetric" src="https://img.shields.io/badge/Altmetric-309-blue.svg?style=flat" /></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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 <h2 id="featured-articles"><i class="fa fa-pencil"></i> Featured Articles</h2>
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 <p><img alt="" src="https://guangchuangyu.github.io/featured_img/ggtree/2015_peiyu_1-s2.0-S1567134815300721-gr1.jpg" /></p>
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@@ -207,9 +207,14 @@
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         },
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         {
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             "location": "/featuredArticles/",
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-            "text": "Let us know\n if you have published using \nggtree\n and your publication will be featured here.\n\n\n\n\n\n\n\n\n\n\n\n\n\n  .rChart {\n    display: block;\n    margin-left: auto; \n    margin-right: auto;\n    width: 800px;\n    height: 300px;\n  }  \n  \n\n\n\n\n\n\n\n    var chartParams = {\n \"element\": \"chart7044272d6fbc\",\n\"width\":            800,\n\"height\":            400,\n\"xkey\": \"year\",\n\"ykeys\": [\n \"cites\" \n],\n\"data\": [\n {\n \"year\": 2016,\n\"cites\":              1,\n\"pubid\": \"HtEfBTGE9r8C\" \n} \n],\n\"id\": \"chart7044272d6fbc\",\n\"labels\": \"cites\" \n},\n      chartType = \"Bar\"\n    new Morris[chartType](chartParams)\n\n\n\n\n 2016\n\n\nLack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient \nArabidopsis\n\n\nPlant Physiology\n May. 2016 \n\n\n\n\nRange overlap drives chromosome inversion fixation in passerine birds\n\n\nbioRxiv\n May. 2016 \nhttp://dx.doi.org/10.1101/053371\n\n\n\n\nPhenotypic and Genotypic Characteristics of Shiga Toxin-Producing Escherichia coli Isolated from Surface Waters and Sediments in a Canadian Urban-Agricultural Landscape\n\n\nFront. Cell. Infect. Microbiol.\n Apr. 2016 \nhttp://dx.doi.org/10.3389%2Ffcimb.2016.00036\n\n\n\n\nWs-2\n Introgression in a Proportion of \nArabidopsis thaliana Col-0\n Stock Seed Produces Specific Phenotypes and Highlights the Importance of Routine Genetic Verification\n\n\nPlant Cell\n Mar. 2016 \nhttp://dx.doi.org/10.1105/tpc.16.00053\n\n\n\n\n 2015\n\n\nThe population genetics of drug resistance evolution in natural populations of viral, bacterial and eukaryotic pathogens\n\n\nMolecuar Ecology\n Dec. 2015 \nhttp://dx.doi.org/10.1111/mec.13474\n\n\n\n\nGenetic characterization of highly pathogenic H5 influenza viruses from poultry in Taiwan, 2015\n\n\nInfection, Genetics and Evolution\n Dec. 2015 \nhttp://dx.doi.org/10.1016/j.meegid.2015.12.006\n\n\n\n\nTrans-species polymorphism at antimicrobial innate immunity cathelicidin genes of Atlantic cod and related species\n\n\nPeerJ\n May 2015 \nhttps://doi.org/10.7717/peerj.976",
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+            "text": "Let us know\n if you have published using \nggtree\n and your publication will be featured here.\n\n\n\n\n\n\n\n\n\n\n\n\n\n  .rChart {\n    display: block;\n    margin-left: auto; \n    margin-right: auto;\n    width: 800px;\n    height: 300px;\n  }  \n  \n\n\n\n\n\n\n\n    var chartParams = {\n \"element\": \"chart7ea0521d7be6\",\n\"width\":            800,\n\"height\":            400,\n\"xkey\": \"year\",\n\"ykeys\": [\n \"cites\" \n],\n\"data\": [\n {\n \"year\": 2016,\n\"cites\":              1,\n\"pubid\": \"HtEfBTGE9r8C\" \n},\n{\n \"year\": 2017,\n\"cites\":              1,\n\"pubid\": \"HtEfBTGE9r8C\" \n} \n],\n\"id\": \"chart7ea0521d7be6\",\n\"labels\": \"cites\" \n},\n      chartType = \"Bar\"\n    new Morris[chartType](chartParams)\n\n\n\n\n 2017\n\n\nPhylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging\n. \nPNAS\n, 2017\n\n\n 2016\n\n\nLack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient \nArabidopsis\n\n\nPlant Physiology\n May. 2016 \n\n\n\n\nRange overlap drives chromosome inversion fixation in passerine birds\n\n\nbioRxiv\n May. 2016 \nhttp://dx.doi.org/10.1101/053371\n\n\n\n\nPhenotypic and Genotypic Characteristics of Shiga Toxin-Producing Escherichia coli Isolated from Surface Waters and Sediments in a Canadian Urban-Agricultural Landscape\n\n\nFront. Cell. Infect. Microbiol.\n Apr. 2016 \nhttp://dx.doi.org/10.3389%2Ffcimb.2016.00036\n\n\n\n\nWs-2\n Introgression in a Proportion of \nArabidopsis thaliana Col-0\n Stock Seed Produces Specific Phenotypes and Highlights the Importance of Routine Genetic Verification\n\n\nPlant Cell\n Mar. 2016 \nhttp://dx.doi.org/10.1105/tpc.16.00053\n\n\n\n\n 2015\n\n\nThe population genetics of drug resistance evolution in natural populations of viral, bacterial and eukaryotic pathogens\n\n\nMolecuar Ecology\n Dec. 2015 \nhttp://dx.doi.org/10.1111/mec.13474\n\n\n\n\nGenetic characterization of highly pathogenic H5 influenza viruses from poultry in Taiwan, 2015\n\n\nInfection, Genetics and Evolution\n Dec. 2015 \nhttp://dx.doi.org/10.1016/j.meegid.2015.12.006\n\n\n\n\nTrans-species polymorphism at antimicrobial innate immunity cathelicidin genes of Atlantic cod and related species\n\n\nPeerJ\n May 2015 \nhttps://doi.org/10.7717/peerj.976",
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             "title": "Featured Articles"
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         },
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+        {
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+            "location": "/featuredArticles/#2017",
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+            "text": "Phylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging .  PNAS , 2017",
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+            "title": " 2017"
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+        },
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         {
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             "location": "/featuredArticles/#2016",
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             "text": "Lack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient  Arabidopsis  Plant Physiology  May. 2016    Range overlap drives chromosome inversion fixation in passerine birds  bioRxiv  May. 2016  http://dx.doi.org/10.1101/053371   Phenotypic and Genotypic Characteristics of Shiga Toxin-Producing Escherichia coli Isolated from Surface Waters and Sediments in a Canadian Urban-Agricultural Landscape  Front. Cell. Infect. Microbiol.  Apr. 2016  http://dx.doi.org/10.3389%2Ffcimb.2016.00036   Ws-2  Introgression in a Proportion of  Arabidopsis thaliana Col-0  Stock Seed Produces Specific Phenotypes and Highlights the Importance of Routine Genetic Verification  Plant Cell  Mar. 2016  http://dx.doi.org/10.1105/tpc.16.00053",
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     <url>
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      <loc>https://guangchuangyu.github.io/ggtree/</loc>
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     </url>
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      <loc>https://guangchuangyu.github.io/ggtree/documentation/</loc>
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      <loc>https://guangchuangyu.github.io/ggtree/faq/</loc>
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      <loc>https://guangchuangyu.github.io/ggtree/featuredArticles/</loc>
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      <loc>https://guangchuangyu.github.io/ggtree/ChIPseeker/</loc>
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      <loc>https://guangchuangyu.github.io/ggtree/clusterProfiler/</loc>
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      <changefreq>daily</changefreq>
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      <loc>https://guangchuangyu.github.io/ggtree/DOSE/</loc>
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      <changefreq>daily</changefreq>
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      <loc>https://guangchuangyu.github.io/ggtree/emojifont/</loc>
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      <changefreq>daily</changefreq>
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      <loc>https://guangchuangyu.github.io/ggtree/ggtree/</loc>
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      <changefreq>daily</changefreq>
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      <loc>https://guangchuangyu.github.io/ggtree/GOSemSim/</loc>
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      <changefreq>daily</changefreq>
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      <loc>https://guangchuangyu.github.io/ggtree/meshes/</loc>
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      <loc>https://guangchuangyu.github.io/ggtree/ReactomePA/</loc>
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      <changefreq>daily</changefreq>
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      <loc>https://guangchuangyu.github.io/ggtree/treeio/</loc>
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 [Let us know](https://github.com/GuangchuangYu/featured_img) if you have published using `ggtree` and your publication will be featured here.
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-[![citation](https://img.shields.io/badge/cited%20by-1-blue.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
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+[![citation](https://img.shields.io/badge/cited%20by-2-blue.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
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 <link rel='stylesheet' href=https://guangchuangyu.github.io/resume/css/morris.css>
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 <script src='https://guangchuangyu.github.io/resume/css/jquery.min.js' type='text/javascript'></script>
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@@ -36,10 +36,10 @@
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   }  
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   </style>
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-<div id = 'chart7044272d6fbc' class = 'rChart morris'></div>
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+<div id = 'chart7ea0521d7be6' class = 'rChart morris'></div>
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 <script type='text/javascript'>
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     var chartParams = {
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- "element": "chart7044272d6fbc",
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+ "element": "chart7ea0521d7be6",
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 "width":            800,
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 "height":            400,
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 "xkey": "year",
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  "year": 2016,
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 "cites":              1,
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 "pubid": "HtEfBTGE9r8C" 
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+},
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+ "year": 2017,
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 } 
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 ],
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       chartType = "Bar"
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 </script>
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+## <i class="fa fa-calendar"></i> 2017
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+[Phylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging](http://dx.doi.org/10.1073/pnas.1617959114). ***PNAS***, 2017
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 ## <i class="fa fa-calendar"></i> 2016
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 Lack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient *Arabidopsis*
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@@ -39,8 +39,8 @@ Guangchuang Yu and Tommy Tsan-Yuk Lam, School of Public Health, The University o
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 Please cite the following article when using `ggtree`:
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 [![doi](https://img.shields.io/badge/doi-10.1111/2041--210X.12628-blue.svg?style=flat)](http://dx.doi.org/10.1111/2041-210X.12628)
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-[![citation](https://img.shields.io/badge/cited%20by-1-blue.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
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-[![Altmetric](https://img.shields.io/badge/Altmetric-299-blue.svg?style=flat)](https://www.altmetric.com/details/10533079)
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+[![citation](https://img.shields.io/badge/cited%20by-2-blue.svg?style=flat)](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
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+[![Altmetric](https://img.shields.io/badge/Altmetric-309-blue.svg?style=flat)](https://www.altmetric.com/details/10533079)
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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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 <!-- article_citation:=HtEfBTGE9r8C -->
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+## <i class="fa fa-calendar"></i> 2017
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+[Phylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging](http://dx.doi.org/10.1073/pnas.1617959114). ***PNAS***, 2017
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 ## <i class="fa fa-calendar"></i> 2016
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 Lack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient *Arabidopsis*