github.com/YuLab-SMU/ggtree issues | Ecosyste.ms: OpenCollective

scale y is already present

YueHaohaohao opened this issue 23 days ago

Feature request: extend short branches with dotted lines to make topology visible

taprs opened this issue about 1 month ago

Is it possible to use ggtree to add a columnar stacked bar chart beneath a circular phylogenetic tree?

ShanfenO opened this issue 2 months ago

`geom_tiplab2()` is broken with custom `coord_polar()` settings

willgearty opened this issue 3 months ago

branch.length = 'none' deletes branches

glitchheadgit opened this issue 3 months ago

All additional layouts are broken

glitchheadgit opened this issue 3 months ago

geom_inset() does not work with layout_dendrogram()

gernat opened this issue 3 months ago

Provide a general solution for faceted tree structure

Yunuuuu opened this issue 3 months ago

Independent adjustment of picture and line transparency when using PhyloPic/Images and align=true parameter

iliapopov17 opened this issue 3 months ago

Is it possible to add spaces or separation between the squares using gheatmap?

KevinLopezReyes opened this issue 4 months ago

Added support for XStringSet in msaplot

yasche opened this pull request 4 months ago

How to move x axis in heatmap by geom_fruit to top?

SilentGene opened this issue 4 months ago

geom_strip has issues with label and angle="auto"

Thomas-Hagan opened this issue 4 months ago

"gradient" in geom_hilight does not work properly with coord_flip() or layout_dendrogram()

PandengWang opened this issue 4 months ago

Failed convertion ggtree into plotly

yoelii opened this issue 4 months ago

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

monis4567 opened this issue 5 months ago

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

danli349 opened this issue 5 months ago

Update DESCRIPTION

catalintucureanu opened this pull request 5 months ago

Interactivity with ggiraph

royfrancis opened this issue 6 months ago

layout argument can be a function, which can re-calculate the coord

xiangpin opened this pull request 6 months ago

geom_hilight

drdna opened this issue 6 months ago

Can not find function getsubtree

ShangLiii opened this issue 6 months ago

No "read.r8s"

WXwangxia opened this issue 7 months ago

ggtree adds unexpected branch/node

Edouard94 opened this issue 7 months ago

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

shenzhenzth opened this issue 7 months ago

mv %<+% to ggfun

xiangpin opened this pull request 8 months ago

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

ammaraziz opened this issue 8 months ago

chunky resolution of circular tree segments

ulo opened this issue 8 months ago

theme_tree2 scale bar width

cabraham03 opened this issue 9 months ago

无法正常绘制layout = "equal-angle"的tree

SeanZhi opened this issue 9 months ago

Expose position argument for `geom_range()`

willgearty opened this pull request 9 months ago

Same name on one tree (2 copies), add links to another tree problem

jianshu93 opened this issue 9 months ago

Problems with Collapse function

nedwalsh opened this issue 10 months ago

Basic functionality missing from ggtree

drdna opened this issue 10 months ago

geom_highlight compresses the tree slightly

maxfarrell opened this issue 10 months ago

Fix #582 Update DESCRIPTION

macroscian opened this pull request 10 months ago

geom_hilight rectangle unreasonably long

ETaSky opened this issue 11 months ago

facet_plot will not plot correctly align to branch in ggtree

cms72 opened this issue 11 months ago

geom_cladelab doesn't facet

dansmith01 opened this issue 11 months ago

Tree tips not colored according to specified colors

JakobDrumm opened this issue 11 months ago

rect_to_poly issue

GuangchuangYu opened this issue 11 months ago

Unwanted white lines between tiles in gheatmap layout circular/fan

ruthvikpsi opened this issue 12 months ago

Error with geom_inset of nodepies onto circular/radial/fan trees

ruthviksp opened this issue 12 months ago

layout_dendrogram and theme_tree2 are incompatiable

SamPassmore opened this issue 12 months ago

Issue with linear tree with only one parent and one

haochenz96 opened this issue 12 months ago

Request to add roundrect.r option to layout.params

n8layman opened this issue about 1 year ago

ggtree not able to produce emojis in color

sophiaaredas opened this issue about 1 year ago

'cophyloplot' equivalent function

Puriney opened this issue about 1 year ago

Collapsing clade in circular layout gives curved min/max/mixed triangles

AroneyS opened this issue over 1 year ago

colour of scale_alpha_continuous

MjelleLab opened this issue over 1 year ago

Add geom_hilight for phyla.

MjelleLab opened this issue over 1 year ago

HMP_tree raw data? availability

MjelleLab opened this issue over 1 year ago

Coarse arc segmentation with circular layout

alephreish opened this issue over 1 year ago

multiple ggtree functions error with "could not find function "offspring.tbl_tree_item""

nelsonruth11 opened this issue over 1 year ago

Phylopic image background is coloured when using circular tree layout

dr-budd opened this issue over 1 year ago

How to get the node number

Ruiqi-CUB opened this issue over 1 year ago

geom_hilight does not highlight the whole clade

BioinfoNovice opened this issue over 1 year ago

Scale on the y-axis in a tree rotated with 'layout_dendrogram()'

gvaleman opened this issue over 1 year ago

Explicit handling of treetime outputs

uee9 opened this issue over 1 year ago

when installing via renv or pak, it sometimes will try to pull treeio from github.com (not from bioconductor)

idavydov opened this issue over 1 year ago

Error running drop.tip example

pedur1 opened this issue over 1 year ago

use check_installed to check whether the suggenst pkg is installed

xiangpin opened this pull request over 1 year ago

updata according to the function migrate of tidytree

xiangpin opened this pull request over 1 year ago

suppress the warning message about check tbl_tree object in tidytree

xiangpin opened this pull request over 1 year ago

Warnings generated by normal use of ggheatmap function

AlexSCFraser opened this issue over 1 year ago

Remove Remotes dependency

AlexandreGuinaudeau opened this pull request over 1 year ago

error in facet_plot():invalid tbl_tree object. Missing column: parent,node.

Avamost1 opened this issue over 1 year ago

supporting linewidth and size in geom_tree

xiangpin opened this pull request over 1 year ago

Cafe analysis

Rhia15 opened this issue over 1 year ago

Heatmap colors are showing transparent when alpha is not used

ireneortega opened this issue over 1 year ago

DLL requires the use of native symbols

msubirana opened this issue over 1 year ago

How to get the coordinate of the nodes of a circular tree by ggtree

ARise-fox opened this issue over 1 year ago

Only one category appearing with geom_fruit

JSSaini opened this issue over 1 year ago

Not able to plot a daylight unrooted tree

barizona opened this issue almost 2 years ago

`geom_tiplab2(geom="phylopic",...)`: errors

bschilder opened this issue almost 2 years ago

`geom_tiplab2(geom="image",...)`: errors

bschilder opened this issue almost 2 years ago

Control x-axis ticks on geom_fruit

MaximePolicarpo opened this issue almost 2 years ago

read.beast does not exist

elizeng opened this issue almost 2 years ago

plotting big tree error

Asa12138 opened this issue almost 2 years ago

Problem to use gheatmap with ggtree

Fla1487 opened this issue almost 2 years ago

geom_edgelab() for labeling edges?

vinwol opened this issue almost 2 years ago

Unable to set colors and generate a legend for a ggtree plot based on Species

uceleste opened this issue almost 2 years ago

Install issue

osoyer opened this issue almost 2 years ago

Color coding tips and branches

anzshahid opened this issue almost 2 years ago

How to add group information to nodes?

xieduo7 opened this issue almost 2 years ago

Changed branch length(hclust)

mengchengyao opened this issue almost 2 years ago

NAs in compareCluster

Shankav opened this issue almost 2 years ago

Issue with the attacher %<+%

MaximePolicarpo opened this issue about 2 years ago

problem_of_revts()

Hong-Wun opened this issue about 2 years ago

Have the branch fold backwards

Cristinex opened this issue about 2 years ago

scale_color_manual not working when geom_fruit (with geom = geom_boxplot) is used

Suirotras opened this issue about 2 years ago

Plotting interaction data / two phylogenies in gheatmap?

maxfarrell opened this issue about 2 years ago

using cli instead of warning_wrap

xiangpin opened this pull request about 2 years ago

Depends were removed from ggplot2 version 3.4.0

Baohua-Chen opened this issue about 2 years ago

I cannot install ggtree in my Ubuntu [solved by following the solutions from post 544]

shinysyk opened this issue about 2 years ago

Update inset.R

cmt2 opened this pull request about 2 years ago

Some `layout` options cause error in ggtree()

cmt2 opened this issue about 2 years ago

Unable to install ggtree_3.2.1: object 'warning_wrap' not found

amizeranschi opened this issue about 2 years ago

update ggtree to compatible with the ggplot2 3.4.0

xiangpin opened this pull request about 2 years ago

flip tree function

antoine4ucsd opened this issue about 2 years ago