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

Merge pull request #606 from macroscian/devel

Fix #582 Update DESCRIPTION

84f9136780e280172f6c258d4efef785fc134716 authored 10 months ago by Guangchuang Yu <[email protected]>

Fix #582 Update DESCRIPTION

Stops forcing treeio to be installed from github when running in renv, by removing the explicit ...

dc51560f647b4214fd827278f117073fd15185c1 authored 10 months ago by Gavin Kelly <[email protected]>

compatible with ggplot2 3.5.0

38016ab1e3fde1ff88ec131e2e6e89aa4a234d9d authored 10 months ago by Guangchuang Yu <[email protected]>

copy rect_to_poly, #601

465e08d84c8350f044a30804c044c1a28b4e3086 authored 10 months ago by Guangchuang Yu <[email protected]>

correct repo, #576

ee1a177f0913ab5caa4876c7106c110824b7f836 authored 10 months ago by Guangchuang Yu <[email protected]>

update bioc version

33a07af48961d893c2a5dcbdc221881899d0456f authored about 1 year ago by Guangchuang Yu <[email protected]>

update bioc version

81f6b6ee7fa9affe0c189e16ceeefa635e66af96 authored about 1 year ago by Guangchuang Yu <[email protected]>

bump x.y.z version to even y prior to creation of RELEASE_3_18 branch

00dcbae01c3445033b80a6ff37d3089eb559796f authored about 1 year ago by J Wokaty <[email protected]>

bump x.y.z version to odd y following creation of RELEASE_3_18 branch

44b546bc6e8d7fd6d0267b6c636abacbacfa38a3 authored about 1 year ago by J Wokaty <[email protected]>

submit to bioconductor

b51cece3bcd1093f41c36570a47c5c1441f8c3c7 authored over 1 year ago by Guangchuang Yu <[email protected]>

Merge pull request #580 from xiangpin/pkgs.check.installed

use check_installed to check whether the suggenst pkg is installed

20ce6e8ce91edde16eb6daf297ef553aa4c84c6e authored over 1 year ago by Guangchuang Yu <[email protected]>

Merge pull request #579 from xiangpin/funtions.migrate

updata according to the function migrate of tidytree

c744c4847a392ffc43359511e7304165a2b35e62 authored over 1 year ago by Guangchuang Yu <[email protected]>

use check_installed to check whether the suggenst pkg is installed

4f7a69b951af19bafe1ae02614c5d44431cfa82a authored over 1 year ago by xiangpin <[email protected]>

updata according to the function migrate of tidytree

208a06cbbfac643018e2c0ca6214491e4e40b76d authored over 1 year ago by xiangpin <[email protected]>

Merge pull request #578 from xiangpin/devel

suppress the warning message about check tbl_tree object in tidytree

6cdc08296e79bf069ad5fcf45989e5dcd726759f authored over 1 year ago by Guangchuang Yu <[email protected]>

update

3c7c8798f97552874e396d08ebd91bfd0efc6e00 authored over 1 year ago by Guangchuang Yu <[email protected]>

yulab branch

0b151d0aeb2e63ad158af95a9860679683ad010e authored over 1 year ago by Guangchuang Yu <[email protected]>

Merge remote-tracking branch 'upstream/devel' into devel

d551f284743dedf8a24eaf1bfea945c317df6080 authored over 1 year ago by xiangpin <[email protected]>

update docs for #574

2b0ab7e2d43def7522e10aa3a5082d097b744707 authored over 1 year ago by Guangchuang Yu <[email protected]>

Merge pull request #574 from xiangpin/devel

supporting linewidth and size in geom_tree

f2bd58e86435709f9405fdbcd20c326cc69f6502 authored over 1 year ago by Guangchuang Yu <[email protected]>

add check.tbl_tree.verbose option

5281520b82578e0d0862fd41f856f8ceeb1b2350 authored over 1 year ago by xiangpin <[email protected]>

Merge remote-tracking branch 'upstream/devel' into devel

0105be73299af30704e1d18e81b3e9f32477fcc8 authored over 1 year ago by xiangpin <[email protected]>

update

d2daabfa7008fe88dcf811217576bffbea133a9e authored over 1 year ago by Guangchuang Yu <[email protected]>

update citation format

a7f4dd58101e85f69a8492ec948092f097799a26 authored over 1 year ago by xiangpin <[email protected]>

Merge remote-tracking branch 'upstream/devel' into devel

9eb8e5ade592ccb042f9af1e57b8d7ecc43ad90a authored over 1 year ago by xiangpin <[email protected]>

update fortify for hclust

9a6e37315900ef9daeacf20d74c0468ade577d11 authored over 1 year ago by xiangpin <[email protected]>

size to linewidth in geom_tree

4fb1ab6253a05bf7d42b4d40e49bd2ed085956cf authored over 1 year ago by xiangpin <[email protected]>

rm gitee

e9a74244753ebecc36883cb8c0e4abe16586a7cb authored over 1 year ago by Guangchuang Yu <[email protected]>

change to devel branch

049d6bba5dcd576995923ab238dbb7895e89b4f1 authored over 1 year ago by Guangchuang Yu <[email protected]>

update docs

034adc426d06c42bdf01ff41636c57237b8100e0 authored over 1 year ago by Guangchuang Yu <[email protected]>

update bioc version

71f57faa990160ca08ea3c05bc637d5c2aa7f9d4 authored over 1 year ago by Guangchuang Yu <[email protected]>

update bioc version

9615606d8432cd090dc7528b183c67adeca5a182 authored over 1 year ago by Guangchuang Yu <[email protected]>

Merge remote-tracking branch 'upstream/master'

6dc366b3447762d380261c7610e858693fef7810 authored over 1 year ago by Guangchuang Yu <[email protected]>

bump x.y.z version to odd y following creation of RELEASE_3_17 branch

12cf587e74d599c24c0a00252ca77dbade78574c authored over 1 year ago by J Wokaty <[email protected]>

bump x.y.z version to even y prior to creation of RELEASE_3_17 branch

e7c989085d0848e4d5f82aa8000422c71458a9a8 authored over 1 year ago by J Wokaty <[email protected]>

clean up code to remove R check notes

d1627ba625fb96bddc679f7cb6ae87a9615a3f27 authored over 1 year ago by Guangchuang Yu <[email protected]>

rm gitee

bf926cd87135e1175ca6ca16d476e35474f67a0d authored over 1 year ago by Guangchuang Yu <[email protected]>

fixed R check

e432737b6d9ac545b3c54ec9f7f9b72c115d2e9b authored over 1 year ago by Guangchuang Yu <[email protected]>

ggtree supports dendro object

2bbee05b68ab3259eb6a2e13bc7ccc71685e9a49 authored almost 2 years ago by Guangchuang Yu <[email protected]>

typo

6bc28f3948ef64176c25ebc8086db5cf4d397f62 authored about 2 years ago by Guangchuang Yu <[email protected]>

update theme_dendrogram

7507955369a6bf721bed675d19c81cb77d6e7f45 authored about 2 years ago by Guangchuang Yu <[email protected]>

update docs

b7ef83eb6b39f262a062e9acb3daafcaf4878fba authored about 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #549 from xiangpin/master

using cli instead of warning_wrap

6a7815201a62d89e8b9e76a38bbc4dfcd8ce52ec authored about 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #546 from cmt2/master

Update inset.R

a4d460bc10ced32c9e474c9431c60e916f1207d7 authored about 2 years ago by Guangchuang Yu <[email protected]>

relace warning_wrap with cli package

c36215307305d5a1c005266dab35e0dd24049e16 authored about 2 years ago by xiangpin <[email protected]>

size of line should be replaced by linewidth to avoid error

ecda61cd0a398be908e5a6e3a3293b64b052c3f3 authored about 2 years ago by xiangpin <[email protected]>

Update inset.R

add any() to prevent warnings about length of vector in colors when tested for is.an() inside gg...

1d607ee4aea53589203151e4a34b09644f5bcd63 authored about 2 years ago by Carrie M Tribble <[email protected]>

bump version

5fdc91ec79504be6b9d55e9b7d03d9118591bedd authored about 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #543 from xiangpin/master

update ggtree to compatible with the ggplot2 3.4.0

51bfc4239143b95236dd721ccb7e665e4a53d83e authored about 2 years ago by Guangchuang Yu <[email protected]>

geom_hilight options

d5b302e205cf93218a39e3cdab6028591edbdde8 authored about 2 years ago by Guangchuang Yu <[email protected]>

Merge branch 'master' into dev_for_new_ggplot2

e82a3f93b634e06569e4f6e0ad4ba3f4f97d5a67 authored about 2 years ago by xiangpin <[email protected]>

update

77e3843725ad6ee15946bfbb615060289640d5dd authored about 2 years ago by Guangchuang Yu <[email protected]>

update docs

403d9f6b3ac69766c019e8ab72abafeda3f8333b authored about 2 years ago by Guangchuang Yu <[email protected]>

bump x.y.z version to odd y following creation of RELEASE_3_16 branch

60c639c250e141101c0946fc7fff87f6622ad231 authored about 2 years ago by J Wokaty <[email protected]>

bump x.y.z version to even y prior to creation of RELEASE_3_16 branch

9e6481c5ef1f420012f084529164feec96a4a363 authored about 2 years ago by J Wokaty <[email protected]>

update bioc version

10df05292a5464de65a7e1df39c80e8eec4078b9 authored about 2 years ago by Guangchuang Yu <[email protected]>

update

b1b4c2adb688c181e42228cce0dd982e0c99574e authored about 2 years ago by Guangchuang Yu <[email protected]>

update docs;

f53863b5ff7582122048e2247c6194047c72aeff authored about 2 years ago by Guangchuang Yu <[email protected]>

correct citation

8fa53c15e16e0cac02841782aefa8ea528469608 authored about 2 years ago by Guangchuang Yu <[email protected]>

update

9792814db482e8a449339b64a6187fb6b650ee10 authored about 2 years ago by Guangchuang Yu <[email protected]>

update

64ba62934ae5899b749f3d3c9d83358a46d32e50 authored about 2 years ago by Guangchuang Yu <[email protected]>

new citation

4aab83f301e1947a6dec3eaeb945c27c820897ad authored about 2 years ago by Guangchuang Yu <[email protected]>

move scale-color-subtree to ggtreeDendro

bf457df7263e21d5102c3454e2088f84e0868791 authored about 2 years ago by Guangchuang Yu <[email protected]>

update citation

6fbaa7619a3e10631620555c3450ed4be0924c1b authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge branch 'master' into dev_for_new_ggplot2

8c778e2caa1460b4a2e2eca18c8e6a875e02fad7 authored over 2 years ago by xiangpin <[email protected]>

bump version

40fd478092d63cdaa37b857f7865ba4dccb8985f authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #527 from xiangpin/master

To better support the visualization of pvclust class using ggtree

6651b9a9d9c609b8164e4f0b931bcafedb53d34b authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge remote-tracking branch 'upstream/master'

7d8d25ed108bd3495504af175f4e828595ccd5ae authored over 2 years ago by xiangpin <[email protected]>

unify the fortify for pvclust and hclust class

943666a01dfdde1b25e15c7220a9678495eeb823 authored over 2 years ago by xiangpin <[email protected]>

Merge pull request #526 from xiangpin/master

update fortify for pvclust and hclust class-like

9661cf6fdce804cb3200f7ec5c5dd671990147d9 authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge remote-tracking branch 'upstream/master'

b516bc45bd60dc931658cf27a0af781630498051 authored over 2 years ago by xiangpin <[email protected]>

update fortify for pvclust class

845fc6950497edb9419a5802266a48ccdaac47c3 authored over 2 years ago by xiangpin <[email protected]>

update docs

99e15b931d857e48791088520326371b7a806269 authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #525 from xiangpin/master

update fortify for pvclust

c542c7c3c75a47dd41cc475df615017d1800f45f authored over 2 years ago by Guangchuang Yu <[email protected]>

update fortify for pvclust

8ed69d0da5ef7e904aed9bd1ca16fda76911517e authored over 2 years ago by xiangpin <[email protected]>

url

bd2e643cbee540a277cb934fe3dbcbb8c080e81c authored over 2 years ago by Guangchuang Yu <[email protected]>

update citation

e6a56b47c660b948d76aa70f5b933f7b593de75d authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #523 from xiangpin/master

fix a bug of roundrect layout to support coord_flip and label of geom_tiplab was mapped to other...

962615622fb8aedee949dee4a6851006aca55ba8 authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge remote-tracking branch 'upstream/master'

760357e537b91ad2cb9e0318f807636f0d9f2f68 authored over 2 years ago by xiangpin <[email protected]>

roundrect and ellipse layout incorporate with coord_flip

130504b33cf4cc38b3f30da7f2b94cfb963c19b3 authored over 2 years ago by xiangpin <[email protected]>

update geom_tiplab when label mapping as as_ylab

8e68437c6bdb2490d134969d7687c80f644570aa authored over 2 years ago by xiangpin <[email protected]>

linkage support

ab464358773bcfeee190c882ee0dce225ff39dea authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #520 from xiangpin/master

fix bug for geom_hilight when layout is daylight or graph layout function

5a345f980c3a0a591afca6ab99461e95a3e7dba9 authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge remote-tracking branch 'upstream/master'

1261cd1aaf30194d426386bb2fcaf3b0e7e7095a authored over 2 years ago by xiangpin <[email protected]>

fix a bug in geom_hilight when layout is daylight etc

ee3dad7d5e631955fa1906ee63dcf2fdce850bc1 authored over 2 years ago by xiangpin <[email protected]>

Merge pull request #517 from xiangpin/master

adjust the height of hclust-like class with dendrogram layout

19d342b6f1c8a8f3207ec73668272e7602d31667 authored over 2 years ago by Guangchuang Yu <[email protected]>

hclust for all layout and update geom_tiplab type of dendrogram layout

721e162d03b6373fe49f8b80e8b820818c38a300 authored over 2 years ago by xiangpin <[email protected]>

adjust the label of dendrogram layout

510fba31ad45c8871f489ca8821d37f43d372c4f authored over 2 years ago by xiangpin <[email protected]>

update plot method for hclust-like class

bf7a47fd8194bf92d5934a12932dddd97d8cfcbb authored over 2 years ago by xiangpin <[email protected]>

update docs

4c620351dcc2c08abbff01e832dfd072bb642f09 authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #516 from xiangpin/master

clone the plot environment before assigning layout

eb9dfe1d86a00d92810d06ad7bda8bd12030bed8 authored over 2 years ago by Guangchuang Yu <[email protected]>

clone the env before assign layout

90b2ed069f7040be0846d6a25c978eaa8bd627cd authored over 2 years ago by xiangpin <[email protected]>

Merge remote-tracking branch 'upstream/master' into dev_for_new_ggplot2

297227e8848bbfffb7fb0c4d98387bdecf42025a authored over 2 years ago by xiangpin <[email protected]>

update

78138d3bb7efbdbed94fae3015ddf6bdc540736a authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #514 from xiangpin/master

fix bug of layoutEqualAngle

a6fb68a790192461a85cda1352f988085d3e989b authored over 2 years ago by Guangchuang Yu <[email protected]>

rename size aesthetic according to ggplot2 (3.4.0)

69f2dbbffdd7ab9e9b0cd911e49f6469d77d9f93 authored over 2 years ago by xiangpin <[email protected]>

fix bug of layoutEqualAngle

d2fa81f7772099c426c9509f09db8ed3b42fbd39 authored over 2 years ago by xiangpin <[email protected]>

update docs

2aad9c49892caecd170518c189e0935d47c31364 authored over 2 years ago by Guangchuang Yu <[email protected]>

Merge pull request #508 from xiangpin/tiplab_dendrogram

geom_tiplab better compatible with dendrogram layout

fb83671cc1f37becc59ad4d649e5708bb77a786c authored over 2 years ago by Guangchuang Yu <[email protected]>

geom_tiplab better compatible with dendrogram layout

65c51451c2538f72950f9d60f33e41d3bcfb92d7 authored over 2 years ago by xiangpin <[email protected]>