c00aac1c |
# ggtree 1.17.1
|
98a43cd2 |
+ `root.position` parameter for `fortify` and `ggtree` (2019-05-27, Mon)
|
0d658ee7 |
+ `geom_facet`, a geom layer version of `facet_plot` (2019-05-23, Thu)
|
e5c982fb |
+ update `scale_x_ggtree`, now we can use `gheatmap() + scale_x_ggtree()` (2019-05-22, Wed)
|
cc140056 |
+ extend `xlim_expand` to work with `ggplot2` (2019-05-20, Tue)
- <https://yulab-smu.github.io/treedata-book/chapter9.html#xlim_expand>
|
c00aac1c |
+ add `legend_title` variable in `gheatmap` (2019-05-16, Thu)
# ggtree 1.16.0
+ Bioconductor 3.9 release
|
4c9fb8bb |
# ggtree 1.15.6
|
21dc5c83 |
+ compatible with range is NULL in `geom_range` (2019-04-27, Sat)
- <https://groups.google.com/d/msg/bioc-ggtree/yNzjtioVVGU/MCh3MPl_CwAJ>
|
a0450f48 |
+ remove `getChild`, `getChild.df`, `getParent`, `getParent.df`, `getSibling`, `getAncestor` and `getAncestor.df`,
instead use `child`, `parent`, `sibling` and `ancestor` methods implemented in `tidytree` and `treeio` (2019-01-30, Wed)
|
1dd645ce |
+ remove `get.offspring.df` and `get.offspring.tip` and instead use `tidytree::offspring` (2019-01-28, Mon)
|
4c9fb8bb |
+ `facet_widths` function to set relative widths of facet panels (2019-01-28, Mon)
- the output is `ggplotify::as.ggplot(grid_object)`, so it is not the original `ggtree` object.
|
a0cd85ce |
# ggtree 1.15.5
|
2b9d5e9d |
+ bug fixed of `theme_tree2` (2019-01-14, Mon)
- <https://github.com/GuangchuangYu/ggtree/issues/218>
|
a0cd85ce |
+ mv `rescale_tree` to `treeio` (2019-01-11, Fri)
|
b6760093 |
# ggtree 1.15.4
+ reimplement `MRCA` as a method inherited from `tidytree` (2019-01-10, Thu)
+ mv vignettes to [treedata-book](https://yulab-smu.github.io/treedata-book/)
|
b7f2b5a1 |
# ggtree 1.15.3
|
e45b2f26 |
+ move `reroot` method to `treeio` package and rename to `root` (2018-12-28, Fri)
|
b7f2b5a1 |
+ bug fixed for setting `branch.length="none"` in unrooted layouts (2018-12-26, Wed)
- bug introduced in <https://github.com/GuangchuangYu/ggtree/pull/201>
|
21cbdbae |
# ggtree 1.15.2
+ compatible with `tibble` v=2.0.0 (2018-11-29, Thu)
|
c8bacdb1 |
# ggtree 1.15.1
|
3d027bb4 |
+ now `revts` also reverse the `branch` column (2018-11-11, Sun)
- <https://groups.google.com/d/msgid/bioc-ggtree/50765a34-53e5-44d2-bb8f-6d20a11fa890%40googlegroups.com>
|
c8bacdb1 |
+ better msg when taxa name not consistent in sequence and tree files with `msaplot`. (2018-11-07, Wed)
- <https://github.com/GuangchuangYu/ggtree/issues/172#issuecomment-436585370>
# ggtree 1.14.0
+ Bioconductor 3.8 release
|
b91f9a97 |
# ggtree 1.13.6
|
919f823e |
+ set `scale_y_continuous(expand = c(0, 0))` for `gheatmap` when `colnames = FALSE` (2018-10-17, Wed)
- <https://github.com/GuangchuangYu/ggtree/issues/204>
|
b91f9a97 |
+ made data usable with treedata in 'equal_angle' and 'daylight' layouts (2018-10-11, Thu)
- <https://github.com/GuangchuangYu/ggtree/pull/201>
|
e84c1f7e |
# ggtree 1.13.5
|
2c3a0a96 |
|
da41bd9e |
+ enable additional parameters passed to `geom_rootedge` (2018-09-13, Thu)
- <https://github.com/GuangchuangYu/ggtree/issues/195>
|
2c3a0a96 |
+ `facet_labeller` to label panels of `facet_plot` output (2018-09-10, Mon)
- <https://groups.google.com/forum/?utm_medium=email&utm_source=footer#!msg/bioc-ggtree/nAl3bNswxQM/crBwKtS3BAAJ>
|
c3727414 |
# ggtree 1.13.3
+ update `viewClade` according to the change of `ggplot2` (2018-08-07, Tue)
- <https://github.com/GuangchuangYu/ggtree/issues/188>
|
6cd5161c |
# ggtree 1.13.2
|
4ec55777 |
|
38dda350 |
+ xmax_adjust in `viewClade` (2018-07-21, Sat)
- <https://github.com/GuangchuangYu/ggtree/issues/187>
|
6cd5161c |
+ update rd of `facet_plot` by adding description and example (2018-07-19, Thu)
|
fb020874 |
+ order by y in `facet_plot` (2018-07-09, Mon)
|
41c82a6c |
+ `extend` parameter in `geom_cladelabel` and `geom_strip` supports specifying
extension of both sides (2018-07-06, Fri)
|
0d475eee |
+ `geom_nodelab2` for circular layout (2018-07-03, Tue)
- <https://groups.google.com/d/msgid/bioc-ggtree/cbe5e1e3-99c4-481d-8523-d5b50cf0460b%40googlegroups.com>
|
4ec55777 |
+ re-export `ggplot2::fortify`
- <https://groups.google.com/d/msgid/bioc-ggtree/bf7a9b3c-9a8f-4d8d-a782-1b467fba38bc%40googlegroups.com>
|
4995cf2a |
# ggtree 1.13.1
|
50b227f1 |
|
5ae49127 |
+ `geom_nodepoint` & `geom_tippoint` now compatible with `ggplot2` v 2.2.1 &
|
4995cf2a |
3.0.0 (2018-06-26, Tue)
|
445bdce3 |
+ `geom_rootedge` (2018-06-13, Wed)
- <https://github.com/GuangchuangYu/ggtree/issues/183>
|
591825ec |
+ `clade_name` parameter added in `collapse` (2018-05-28, Mon)
- <https://groups.google.com/forum/?utm_medium=email&utm_source=footer#!msg/bioc-ggtree/0H1PCJPlI1Q/DeZf9EVhBQAJ>
|
9f5ec41a |
+ bug fixed of `gheatmap` for rowname subsetting is partial match in R
|
e4f92cb5 |
(2018-05-23, Wed)
- <https://github.com/GuangchuangYu/ggtree/issues/182>
+ compatible with ggplot2 2.2.1.9000 for `geom_text2(parse="emoji")`
|
e183e7d1 |
+ typo on vignettes (2018-05-08, Tue)
- <https://github.com/GuangchuangYu/ggtree/pull/178>, thanks [@abichat](https://github.com/abichat)
|
50b227f1 |
+ compatible with ggplot2 2.2.1.9000 (2018-05-02, Wed)
- incorporate newly introduce parameter `linejoin` and `arrow.fill` in `geom_segment`
# ggtree 1.12.0
+ Bioconductor 3.7 release (2018-05-01, Tue)
|
8407d2ab |
# ggtree 1.11.6
|
cf8b3bfe |
|
0b803ba8 |
+ reexport `treeio::read.iqtree` & `treeio::read.astral`(2018-04-17, Tue)
|
8407d2ab |
+ now geom_treescale will plot the text that can **always** be separated from
the bar (2018-03-07, Wed)
+ optimize daylight layout
- <https://github.com/GuangchuangYu/ggtree/pull/165>
- <https://github.com/GuangchuangYu/ggtree/pull/169>
|
40a372c1 |
+ geom_tiplab2 works with mapping = aes(subset) defined by users (2018-02-24, Sta)
- <https://groups.google.com/d/msgid/bioc-ggtree/72e18c5b-0ce5-4c25-80fa-3e2dabda8f72%40googlegroups.com>
|
d7cfc5a4 |
+ fixed overlapping branch after `flip`
- <https://github.com/GuangchuangYu/ggtree/issues/167>
# ggtree 1.11.5
|
a67ffa28 |
+ support passing `aes(subset)` in geom_tippoint (2018-01-30, Tue)
|
897c2ec4 |
+ support passing `aes(subset)` in geom_nodepoint (2018-01-26, Fri)
|
cf8b3bfe |
+ fine tune y position after flip; flip compatible with collapse
- <https://groups.google.com/d/msgid/bioc-ggtree/1d06342c-9645-4f71-9e66-7d7a7099bf0b%40googlegroups.com?utm_medium=email&utm_source=footer>
|
b681f0b4 |
# ggtree 1.11.4
|
0266c285 |
+ re-implement collapse as collapse.ggtree method by importing dplyr::collapse
generic to prevent function name collision (2018-01-03, Wed)
|
149acb32 |
+ update treeVisualization vignette, with more layout examples added (2017-12-22, Fri)
|
b681f0b4 |
+ update vignette (2017-12-21, Thu)
- remove ggtreeUtilities.Rmd
- merge treeAnnotation and advanceTreeAnnotation
|
149acb32 |
|