ggtree

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### Prerequisites + [x ] Have you read [Feedback](https://guangchuangyu.github.io/ggtree/#feedback) and follow the [guide](https://guangchuangyu.github.io/2016/07/how-to-bug-author/)? ### Ask in right place * [ x] for bugs or feature requests, post here (github issue)...

ETaSky

Hi - I have a set of descriptions (descriptons1) that I am trying to align to the tree. To separate these descriptions from another set of data, I used facet_plot....

cms72

No "read.r8s"

2

dear author, i wanna visualize the result of r8s, which is a program for analysis of rates of evolution. Fortunately, i found the ggtree package that could realize it. but...

WXwangxia

ggtree adds unexpected branch/node

1

Hello, I am struggling with the following code I'm using to annotate my tree. It seems that ggtree adds an extra branch/node to the tree that should not be there,...

Edouard94

Sorting Problem of Evolutionary Leaf Node Labels//咨询进化树叶节点的排序问题

3

Dear author I have a simple question to consult, but it does confuse me. When I use ggtree, the order of tree $tip. label is always the order in the...

shenzhenzth

geom_taxalink error "as_string() Can't convert `NULL` to a string."

3

### Prerequisites + [X] Have you read [Feedback](https://guangchuangyu.github.io/ggtree/#feedback) and follow the [guide](https://guangchuangyu.github.io/2016/07/how-to-bug-author/)? * [X] make sure your are using the latest release version * [X] read the [documents](https://yulab-smu.github.io/treedata-book/) * [X]...

ammaraziz

Hi! I love to use the circular ggtree layouts, but always found the low line segment resolution - especially close to the root - somewhat unattractive:  Apparently that is...

ulo

Failed convertion ggtree into plotly

1

Hello, I try to convert my tree, previoulsy made in ggtree into a plotly tree but label and color disapear after conversion. Test code : ```R library(ggimage) library(ggtree) library(TDbook) #...

yoelii

ggtree::msaplot in your own example posted on Rbloggers is not working

1

I searched for issues related to the function 'ggtree::msaplot' and found this website: https://www.r-bloggers.com/2016/08/ggtree-for-microbiome-data/ I am unable to get this line working: msaplot(p, Biostrings::BStringSet(barcode), width=.3, offset=.05) I get this error:...

monis4567

BiocManager::install("ggtree"), Error in get(x, envir = ns, inherits = FALSE) : object 'rect_to_poly' not found

2

Hi: ```{r} BiocManager::install("ggtree") ``` How to solve this error? ```{r} Bioconductor version 3.17 (BiocManager 1.30.22), R 4.3.0 (2023-04-21) Installing package(s) 'ggtree' trying URL 'https://bioconductor.org/packages/3.17/bioc/src/contrib/ggtree_3.8.2.tar.gz' Content type 'application/gzip' length 360923 bytes...

danli349