ggtree issues | Ecosyste.ms: OpenCollective

scale y is already present

github.com/YuLab-SMU/ggtree - YueHaohaohao opened this issue 6 days ago

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

github.com/YuLab-SMU/ggtree - taprs opened this issue 26 days ago

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

github.com/YuLab-SMU/ggtree - ShanfenO opened this issue about 2 months ago

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

github.com/YuLab-SMU/ggtree - willgearty opened this issue about 2 months ago

branch.length = 'none' deletes branches

github.com/YuLab-SMU/ggtree - glitchheadgit opened this issue 2 months ago

All additional layouts are broken

github.com/YuLab-SMU/ggtree - glitchheadgit opened this issue 2 months ago

geom_inset() does not work with layout_dendrogram()

github.com/YuLab-SMU/ggtree - gernat opened this issue 2 months ago

Provide a general solution for faceted tree structure

github.com/YuLab-SMU/ggtree - Yunuuuu opened this issue 2 months ago

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

github.com/YuLab-SMU/ggtree - iliapopov17 opened this issue 2 months ago

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

github.com/YuLab-SMU/ggtree - KevinLopezReyes opened this issue 3 months ago

Added support for XStringSet in msaplot

github.com/YuLab-SMU/ggtree - yasche opened this pull request 3 months ago

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

github.com/YuLab-SMU/ggtree - SilentGene opened this issue 3 months ago

geom_strip has issues with label and angle="auto"

github.com/YuLab-SMU/ggtree - Thomas-Hagan opened this issue 3 months ago

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

github.com/YuLab-SMU/ggtree - PandengWang opened this issue 3 months ago

Failed convertion ggtree into plotly

github.com/YuLab-SMU/ggtree - yoelii opened this issue 4 months ago

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

github.com/YuLab-SMU/ggtree - monis4567 opened this issue 4 months ago

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

github.com/YuLab-SMU/ggtree - danli349 opened this issue 4 months ago

Update DESCRIPTION

github.com/YuLab-SMU/ggtree - catalintucureanu opened this pull request 5 months ago

Interactivity with ggiraph

github.com/YuLab-SMU/ggtree - royfrancis opened this issue 5 months ago

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

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request 5 months ago

geom_hilight

github.com/YuLab-SMU/ggtree - drdna opened this issue 6 months ago

Can not find function getsubtree

github.com/YuLab-SMU/ggtree - ShangLiii opened this issue 6 months ago

No "read.r8s"

github.com/YuLab-SMU/ggtree - WXwangxia opened this issue 6 months ago

ggtree adds unexpected branch/node

github.com/YuLab-SMU/ggtree - 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

github.com/YuLab-SMU/ggtree - shenzhenzth opened this issue 7 months ago

mv %<+% to ggfun

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request 7 months ago

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

github.com/YuLab-SMU/ggtree - ammaraziz opened this issue 7 months ago

chunky resolution of circular tree segments

github.com/YuLab-SMU/ggtree - ulo opened this issue 7 months ago

theme_tree2 scale bar width

github.com/YuLab-SMU/ggtree - cabraham03 opened this issue 8 months ago

无法正常绘制layout = "equal-angle"的tree

github.com/YuLab-SMU/ggtree - SeanZhi opened this issue 9 months ago

Expose position argument for `geom_range()`

github.com/YuLab-SMU/ggtree - willgearty opened this pull request 9 months ago

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

github.com/YuLab-SMU/ggtree - jianshu93 opened this issue 9 months ago

Problems with Collapse function

github.com/YuLab-SMU/ggtree - nedwalsh opened this issue 9 months ago

Basic functionality missing from ggtree

github.com/YuLab-SMU/ggtree - drdna opened this issue 9 months ago

geom_highlight compresses the tree slightly

github.com/YuLab-SMU/ggtree - maxfarrell opened this issue 10 months ago

Fix #582 Update DESCRIPTION

github.com/YuLab-SMU/ggtree - macroscian opened this pull request 10 months ago

geom_hilight rectangle unreasonably long

github.com/YuLab-SMU/ggtree - ETaSky opened this issue 10 months ago

facet_plot will not plot correctly align to branch in ggtree

github.com/YuLab-SMU/ggtree - cms72 opened this issue 10 months ago

geom_cladelab doesn't facet

github.com/YuLab-SMU/ggtree - dansmith01 opened this issue 10 months ago

Tree tips not colored according to specified colors

github.com/YuLab-SMU/ggtree - JakobDrumm opened this issue 11 months ago

rect_to_poly issue

github.com/YuLab-SMU/ggtree - GuangchuangYu opened this issue 11 months ago

Unwanted white lines between tiles in gheatmap layout circular/fan

github.com/YuLab-SMU/ggtree - ruthvikpsi opened this issue 11 months ago

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

github.com/YuLab-SMU/ggtree - ruthviksp opened this issue 11 months ago

layout_dendrogram and theme_tree2 are incompatiable

github.com/YuLab-SMU/ggtree - SamPassmore opened this issue 11 months ago

Issue with linear tree with only one parent and one

github.com/YuLab-SMU/ggtree - haochenz96 opened this issue 11 months ago

Request to add roundrect.r option to layout.params

github.com/YuLab-SMU/ggtree - n8layman opened this issue about 1 year ago

ggtree not able to produce emojis in color

github.com/YuLab-SMU/ggtree - sophiaaredas opened this issue about 1 year ago

'cophyloplot' equivalent function

github.com/YuLab-SMU/ggtree - Puriney opened this issue about 1 year ago

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

github.com/YuLab-SMU/ggtree - AroneyS opened this issue about 1 year ago

colour of scale_alpha_continuous

github.com/YuLab-SMU/ggtree - MjelleLab opened this issue about 1 year ago

Add geom_hilight for phyla.

github.com/YuLab-SMU/ggtree - MjelleLab opened this issue about 1 year ago

HMP_tree raw data? availability

github.com/YuLab-SMU/ggtree - MjelleLab opened this issue over 1 year ago

Coarse arc segmentation with circular layout

github.com/YuLab-SMU/ggtree - alephreish opened this issue over 1 year ago

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

github.com/YuLab-SMU/ggtree - nelsonruth11 opened this issue over 1 year ago

Phylopic image background is coloured when using circular tree layout

github.com/YuLab-SMU/ggtree - dr-budd opened this issue over 1 year ago

How to get the node number

github.com/YuLab-SMU/ggtree - Ruiqi-CUB opened this issue over 1 year ago

geom_hilight does not highlight the whole clade

github.com/YuLab-SMU/ggtree - BioinfoNovice opened this issue over 1 year ago

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

github.com/YuLab-SMU/ggtree - gvaleman opened this issue over 1 year ago

Explicit handling of treetime outputs

github.com/YuLab-SMU/ggtree - 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)

github.com/YuLab-SMU/ggtree - idavydov opened this issue over 1 year ago

Error running drop.tip example

github.com/YuLab-SMU/ggtree - pedur1 opened this issue over 1 year ago

use check_installed to check whether the suggenst pkg is installed

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request over 1 year ago

updata according to the function migrate of tidytree

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request over 1 year ago

suppress the warning message about check tbl_tree object in tidytree

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request over 1 year ago

Warnings generated by normal use of ggheatmap function

github.com/YuLab-SMU/ggtree - AlexSCFraser opened this issue over 1 year ago

Remove Remotes dependency

github.com/YuLab-SMU/ggtree - AlexandreGuinaudeau opened this pull request over 1 year ago

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

github.com/YuLab-SMU/ggtree - Avamost1 opened this issue over 1 year ago

supporting linewidth and size in geom_tree

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request over 1 year ago

Cafe analysis

github.com/YuLab-SMU/ggtree - Rhia15 opened this issue over 1 year ago

Heatmap colors are showing transparent when alpha is not used

github.com/YuLab-SMU/ggtree - ireneortega opened this issue over 1 year ago

DLL requires the use of native symbols

github.com/YuLab-SMU/ggtree - msubirana opened this issue over 1 year ago

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

github.com/YuLab-SMU/ggtree - ARise-fox opened this issue over 1 year ago

Only one category appearing with geom_fruit

github.com/YuLab-SMU/ggtree - JSSaini opened this issue over 1 year ago

Not able to plot a daylight unrooted tree

github.com/YuLab-SMU/ggtree - barizona opened this issue over 1 year ago

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

github.com/YuLab-SMU/ggtree - bschilder opened this issue almost 2 years ago

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

github.com/YuLab-SMU/ggtree - bschilder opened this issue almost 2 years ago

Control x-axis ticks on geom_fruit

github.com/YuLab-SMU/ggtree - MaximePolicarpo opened this issue almost 2 years ago

read.beast does not exist

github.com/YuLab-SMU/ggtree - elizeng opened this issue almost 2 years ago

plotting big tree error

github.com/YuLab-SMU/ggtree - Asa12138 opened this issue almost 2 years ago

Problem to use gheatmap with ggtree

github.com/YuLab-SMU/ggtree - Fla1487 opened this issue almost 2 years ago

geom_edgelab() for labeling edges?

github.com/YuLab-SMU/ggtree - vinwol opened this issue almost 2 years ago

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

github.com/YuLab-SMU/ggtree - uceleste opened this issue almost 2 years ago

Install issue

github.com/YuLab-SMU/ggtree - osoyer opened this issue almost 2 years ago

Color coding tips and branches

github.com/YuLab-SMU/ggtree - anzshahid opened this issue almost 2 years ago

How to add group information to nodes?

github.com/YuLab-SMU/ggtree - xieduo7 opened this issue almost 2 years ago

Changed branch length(hclust)

github.com/YuLab-SMU/ggtree - mengchengyao opened this issue almost 2 years ago

NAs in compareCluster

github.com/YuLab-SMU/ggtree - Shankav opened this issue almost 2 years ago

Issue with the attacher %<+%

github.com/YuLab-SMU/ggtree - MaximePolicarpo opened this issue almost 2 years ago

problem_of_revts()

github.com/YuLab-SMU/ggtree - Hong-Wun opened this issue almost 2 years ago

Have the branch fold backwards

github.com/YuLab-SMU/ggtree - Cristinex opened this issue about 2 years ago

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

github.com/YuLab-SMU/ggtree - Suirotras opened this issue about 2 years ago

Plotting interaction data / two phylogenies in gheatmap?

github.com/YuLab-SMU/ggtree - maxfarrell opened this issue about 2 years ago

using cli instead of warning_wrap

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request about 2 years ago

Depends were removed from ggplot2 version 3.4.0

github.com/YuLab-SMU/ggtree - Baohua-Chen opened this issue about 2 years ago

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

github.com/YuLab-SMU/ggtree - shinysyk opened this issue about 2 years ago

Update inset.R

github.com/YuLab-SMU/ggtree - cmt2 opened this pull request about 2 years ago

Some `layout` options cause error in ggtree()

github.com/YuLab-SMU/ggtree - cmt2 opened this issue about 2 years ago

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

github.com/YuLab-SMU/ggtree - amizeranschi opened this issue about 2 years ago

update ggtree to compatible with the ggplot2 3.4.0

github.com/YuLab-SMU/ggtree - xiangpin opened this pull request about 2 years ago

flip tree function

github.com/YuLab-SMU/ggtree - antoine4ucsd opened this issue about 2 years ago