Browse code

bump version up

Guangchuang Yu authored on 30/09/2018 02:29:03
Showing 4 changed files

... ...
@@ -2,7 +2,7 @@ Package: ggtree
2 2
 Type: Package
3 3
 Title: an R package for visualization and annotation of phylogenetic trees with
4 4
     their covariates and other associated data
5
-Version: 1.13.4.991
5
+Version: 1.13.5
6 6
 Authors@R: c(
7 7
 	   person("Guangchuang", "Yu",     email = "guangchuangyu@gmail.com", role = c("aut", "cre", "cph"), comment = c(ORCID = "0000-0002-6485-8781")),
8 8
 	   person("Tommy Tsan-Yuk", "Lam", email = "tylam.tommy@gmail.com",   role = c("aut", "ths")),
... ...
@@ -1,4 +1,4 @@
1
-# ggtree 1.13.4.991
1
+# ggtree 1.13.5
2 2
 
3 3
 + enable additional parameters passed to `geom_rootedge` (2018-09-13, Thu)
4 4
   - <https://github.com/GuangchuangYu/ggtree/issues/195>
... ...
@@ -1,7 +1,7 @@
1 1
 ---
2 2
 output:
3 3
   md_document:
4
-    variant: markdown_github
4
+    variant: gfm
5 5
 html_preview: false
6 6
 ---
7 7
 
... ...
@@ -1,33 +1,54 @@
1 1
 <!-- README.md is generated from README.Rmd. Please edit that file -->
2
-ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
3
-===========================================================================================================================
2
+
3
+# ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
4 4
 
5 5
 <img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/ggtree/ggtree.png" height="200" align="right" />
6 6
 
7
-[![releaseVersion](https://img.shields.io/badge/release%20version-1.12.4-green.svg?style=flat)](https://bioconductor.org/packages/ggtree) [![develVersion](https://img.shields.io/badge/devel%20version-1.13.2-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) [![Awesome](https://cdn.rawgit.com/sindresorhus/awesome/d7305f38d29fed78fa85652e3a63e154dd8e8829/media/badge.svg)](https://awesome-r.com/#awesome-r-graphic-displays)
7
+[![releaseVersion](https://img.shields.io/badge/release%20version-1.12.7-green.svg?style=flat)](https://bioconductor.org/packages/ggtree)
8
+[![develVersion](https://img.shields.io/badge/devel%20version-1.13.5-green.svg?style=flat)](https://github.com/guangchuangyu/ggtree)
9
+[![Bioc](http://www.bioconductor.org/shields/years-in-bioc/ggtree.svg)](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#since)
10
+[![Awesome](https://cdn.rawgit.com/sindresorhus/awesome/d7305f38d29fed78fa85652e3a63e154dd8e8829/media/badge.svg)](https://awesome-r.com/#awesome-r-graphic-displays)
8 11
 
9
-[![platform](http://www.bioconductor.org/shields/availability/devel/ggtree.svg)](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#archives) [![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-2018--07--19-green.svg)](https://github.com/GuangchuangYu/ggtree/commits/master)
12
+[![platform](http://www.bioconductor.org/shields/availability/devel/ggtree.svg)](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#archives)
13
+[![Project Status: Active - The project has reached a stable, usable
14
+state and is being actively
15
+developed.](http://www.repostatus.org/badges/latest/active.svg)](http://www.repostatus.org/#active)
16
+[![codecov](https://codecov.io/gh/GuangchuangYu/ggtree/branch/master/graph/badge.svg)](https://codecov.io/gh/GuangchuangYu/ggtree)
17
+[![Last-changedate](https://img.shields.io/badge/last%20change-2018--09--30-green.svg)](https://github.com/GuangchuangYu/ggtree/commits/master)
10 18
 
11
-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.
19
+The `ggtree` package extending the `ggplot2` package. It based on
20
+grammar of graphics and takes all the good parts of `ggplot2`. `ggtree`
21
+is designed for not only viewing phylogenetic tree but also displaying
22
+annotation data on the tree.
12 23
 
13
-For details, please visit our project website, <https://guangchuangyu.github.io/software/ggtree>.
24
+For details, please visit our project website,
25
+<https://guangchuangyu.github.io/software/ggtree>.
14 26
 
15
--   [Documentation](https://guangchuangyu.github.io/software/ggtree/documentation/)
16
--   [FAQ](https://guangchuangyu.github.io/software/ggtree/faq/)
17
--   [Featured Articles](https://guangchuangyu.github.io/software/ggtree/featuredArticles/)
18
--   [Feedback](https://guangchuangyu.github.io/software/ggtree/#feedback)
27
+  - [Documentation](https://guangchuangyu.github.io/software/ggtree/documentation/)
28
+  - [FAQ](https://guangchuangyu.github.io/software/ggtree/faq/)
29
+  - [Featured
30
+    Articles](https://guangchuangyu.github.io/software/ggtree/featuredArticles/)
31
+  - [Feedback](https://guangchuangyu.github.io/software/ggtree/#feedback)
19 32
 
20
-[![Twitter](https://img.shields.io/twitter/url/http/shields.io.svg?style=social&logo=twitter)](https://twitter.com/intent/tweet?hashtags=ggtree&url=http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628/abstract&screen_name=guangchuangyu) [![saythanks](https://img.shields.io/badge/say-thanks-ff69b4.svg)](https://saythanks.io/to/GuangchuangYu) [![](https://img.shields.io/badge/follow%20me%20on-微信-green.svg?style=flat)](https://guangchuangyu.github.io/blog_images/biobabble.jpg) [![](https://img.shields.io/badge/打赏-支付宝/微信-green.svg?style=flat)](https://guangchuangyu.github.io/blog_images/pay_qrcode.png)
33
+[![Twitter](https://img.shields.io/twitter/url/http/shields.io.svg?style=social&logo=twitter)](https://twitter.com/intent/tweet?hashtags=ggtree&url=http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628/abstract&screen_name=guangchuangyu)
34
+[![saythanks](https://img.shields.io/badge/say-thanks-ff69b4.svg)](https://saythanks.io/to/GuangchuangYu)
35
+[![](https://img.shields.io/badge/follow%20me%20on-微信-green.svg?style=flat)](https://guangchuangyu.github.io/blog_images/biobabble.jpg)
36
+[![](https://img.shields.io/badge/打赏-支付宝/微信-green.svg?style=flat)](https://guangchuangyu.github.io/blog_images/pay_qrcode.png)
21 37
 
38
+-----
22 39
 
23 40
 Please cite the following article when using `ggtree`:
24 41
 
25
-**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.
42
+**G Yu**, DK Smith, H Zhu, Y Guan, TTY Lam<sup>\*</sup>. ggtree: an R
43
+package for visualization and annotation of phylogenetic trees with
44
+their covariates and other associated data. ***Methods in Ecology and
45
+Evolution***. 2017,
46
+8(1):28-36.
26 47
 
27
-[![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) [![Altmetric](https://img.shields.io/badge/Altmetric-320-green.svg?style=flat)](https://www.altmetric.com/details/10533079)
48
+[![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)
49
+[![Altmetric](https://img.shields.io/badge/Altmetric-318-green.svg?style=flat)](https://www.altmetric.com/details/10533079)
28 50
 
51
+-----
29 52
 
30 53
 ### Citation
31 54
 
... ...
@@ -35,11 +56,14 @@ Please cite the following article when using `ggtree`:
35 56
 
36 57
 ### Download stats
37 58
 
38
-[![download](http://www.bioconductor.org/shields/downloads/ggtree.svg)](https://bioconductor.org/packages/stats/bioc/ggtree) [![total](https://img.shields.io/badge/downloads-31843/total-blue.svg?style=flat)](https://bioconductor.org/packages/stats/bioc/ggtree) [![month](https://img.shields.io/badge/downloads-1325/month-blue.svg?style=flat)](https://bioconductor.org/packages/stats/bioc/ggtree)
59
+[![download](http://www.bioconductor.org/shields/downloads/ggtree.svg)](https://bioconductor.org/packages/stats/bioc/ggtree)
60
+[![total](https://img.shields.io/badge/downloads-35476/total-blue.svg?style=flat)](https://bioconductor.org/packages/stats/bioc/ggtree)
61
+[![month](https://img.shields.io/badge/downloads-1614/month-blue.svg?style=flat)](https://bioconductor.org/packages/stats/bioc/ggtree)
39 62
 
40 63
 <img src="https://guangchuangyu.github.io/software/ggtree/index_files/figure-html/dlstats-1.png" width="890"/>
41 64
 
42
-Contributing
65
+## Contributing
43 66
 
44
-We welcome any contributions! By participating in this project you agree to abide by the terms outlined in the [Contributor Code of Conduct](CONDUCT.md).
67
+We welcome any contributions\! By participating in this project you
68
+agree to abide by the terms outlined in the [Contributor Code of
69
+Conduct](CONDUCT.md).