Ecosyste.ms: OpenCollective

An open API service for software projects hosted on Open Collective.

github.com/YuLab-SMU/ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees
https://github.com/YuLab-SMU/ggtree

compute_panel

9399a126359ccd6bb6bb36fd58e42922ed905abc authored almost 9 years ago by Guangchuang Yu <[email protected]>
update geom_tree2

f774ffc2b83b6a43cc96f8369da5b81a61134d54 authored almost 9 years ago by GuangchuangYu <[email protected]>
update geom_tree

a0884aaeeffb1db0cc135982d68898b5d8f331e7 authored almost 9 years ago by GuangchuangYu <[email protected]>
update geom_point2, geom_text2 and geom_segment2 to support setup_tree_data

35596aae7465e7ea7d57d494534df6981fb0b192 authored almost 9 years ago by GuangchuangYu <[email protected]>
support labels in multiplot

93c27df22d6a24bc04076244762f7c97da1d989f authored almost 9 years ago by GuangchuangYu <[email protected]>
support phyloseq object

a7cec45ca9e7453cf93396a069d0b9f46f5c6a92 authored almost 9 years ago by GuangchuangYu <[email protected]>
new implementation of geom_tree

7c236a3223711e885eff52f028c7d620f3bb986f authored almost 9 years ago by GuangchuangYu <[email protected]>
multiplot

3cf4da8315dd42976d4896c345a4c28601c077a8 authored almost 9 years ago by GuangchuangYu <[email protected]>
rescale_tree

b0c19b734f10c7893d4a8b2dcee2966ee7ce99c2 authored almost 9 years ago by GuangchuangYu <[email protected]>
update vignette

9e969940ec7bed0009a4f8f06368036c8cd0e7d5 authored almost 9 years ago by GuangchuangYu <[email protected]>
support phylip format

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112578 bc3139a8-6...

6f076280057a7d65dcc0628f47ea8630b49b8d52 authored almost 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
support phylip format

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112578 b...

df059d883aa8d7e5f0a0a8b6d193db98f8680de1 authored almost 9 years ago by Guangchuang Yu <[email protected]>
svnignore

13f96cdab90921170632eaaad4f6810772826ef6 authored almost 9 years ago by GuangchuangYu <[email protected]>
:christmas_tree: support phylip format

ae9cdd48b76e0694c8c7db9345ecfcab041cd9d9 authored almost 9 years ago by GuangchuangYu <[email protected]>
remove some piep

346b4dfc526b5dff1cda442578bf97b20790fb6a authored almost 9 years ago by GuangchuangYu <[email protected]>
comment

f3f62ec1a9b40364d62da1ec2e692cc377fa50eb authored almost 9 years ago by GuangchuangYu <[email protected]>
optimize

a4b7b80ccfe54e95e381a5ff8b39f167b0a389b1 authored almost 9 years ago by GuangchuangYu <[email protected]>
optimize ggtree

a73bd820432348ce26c7591aabc8511ca3110382 authored almost 9 years ago by Guangchuang Yu <[email protected]>
add 'multiPhylo' example in 'Tree Visualization' vignette <2016-01-13, Wed>

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112504 b...

a1cac40c43bba1bc967d34ac7b60922764316ebd authored almost 9 years ago by Guangchuang Yu <[email protected]>
add 'multiPhylo' example in 'Tree Visualization' vignette <2016-01-13, Wed>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112504 bc3139a8-6...

9e73a52511f8799b32eec552ed18d7b5628f70b2 authored almost 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
add 'multiPhylo' example in 'Tree Visualization' vignette <2016-01-13, Wed>

1331448cb6f98e918e3d1d7046707c3a6cada7f8 authored almost 9 years ago by GuangchuangYu <[email protected]>
viewClade, scaleClade, collapse, expand, rotate, flip, get_taxa_name and scale_x_ggtree accepts input tree_view=NULL.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112503 b...

0b5c08bd16b75a3d6bc55d09c9f9bb905376f4bc authored almost 9 years ago by Guangchuang Yu <[email protected]>
viewClade, scaleClade, collapse, expand, rotate, flip, get_taxa_name and scale_x_ggtree accepts input tree_view=NULL.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112503 bc3139a8-6...

eb96c2d3f54af6512bed2311f053c203f82ff447 authored almost 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
viewClade, scaleClade, collapse, expand, rotate, flip, get_taxa_name and scale_x_ggtree accepts input tree_view=NULL.

17b411737763c42b38f144d28acd2594bf5e3dd6 authored almost 9 years ago by GuangchuangYu <[email protected]>
viewClade function

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112497 bc3139a8-6...

86ac6e8011d0a682aac038c10761a4953aac4f94 authored almost 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
viewClade function

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112497 b...

869c8fbccf3cf874e86771feb069e7b5f0a6d238 authored almost 9 years ago by Guangchuang Yu <[email protected]>
update docs

b6a3c31e395e577973f081b78d3876606f92c90c authored almost 9 years ago by GuangchuangYu <[email protected]>
viewClade function

384c02fd64d9c35559f3c9139cf97b89d9f493fd authored almost 9 years ago by GuangchuangYu <[email protected]>
support OutbreakTools::obkData

4d1338fcd61ac628a6312c81e96f4c72460fb767 authored almost 9 years ago by GuangchuangYu <[email protected]>
support obkData object

0489f84b4900512104701171c90d4d102c7b7330 authored about 9 years ago by GuangchuangYu <[email protected]>
update vignettes

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112408 bc3139a8-6...

0ae9e98a587da46ee8d619cbea92a7742c076b38 authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
update vignettes

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112408 b...

16dd3ab862540145d3f33e27eaa2695716c31a12 authored about 9 years ago by Guangchuang Yu <[email protected]>
update figure

ddba42cf05c55a11041f6f855d6366f86ef9251c authored about 9 years ago by GuangchuangYu <[email protected]>
update ggtree_objects png file

c6f492cb645d87ef48e339d152c915d29b8b111e authored about 9 years ago by GuangchuangYu <[email protected]>
update vignettes

9ca11ae3c4e14753bbcd7d1a0885782240bcae1e authored about 9 years ago by Guangchuang Yu <[email protected]>
typo

b6d42e649b8726c641af87f6c5a58292af4ddecc authored about 9 years ago by Guangchuang Yu <[email protected]>
update advance tree annotation vignette

8af63ab84ba6d07e3de3c81e19879823a852c781 authored about 9 years ago by Guangchuang Yu <[email protected]>
update ggtree vignette

cebf6d4448ff3f9feea2857e1db81647b88443ec authored about 9 years ago by Guangchuang Yu <[email protected]>
update tree annotation vignett

7087e67ec9950377dcb69046656cd5640f133023 authored about 9 years ago by Guangchuang Yu <[email protected]>
update tree manipulation vignette

9a354dcdefb0ed734c4a7e173c8d8d694a232f94 authored about 9 years ago by GuangchuangYu <[email protected]>
update ggtree function

40f21e3ad76d69781378745e83f74249612f5c55 authored about 9 years ago by GuangchuangYu <[email protected]>
update tree visualization vignette

2f1254427b29087282e86fb6788012cf90b309d3 authored about 9 years ago by GuangchuangYu <[email protected]>
update tree import vignette

b3dfa35b7c106fe32565158c2a02420880523d5c authored about 9 years ago by GuangchuangYu <[email protected]>
update tree import vignette

57bc1aedde2ecc86275ef3e6d91c3146c6a45f0d authored about 9 years ago by GuangchuangYu <[email protected]>
inset function and update vignette

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112112 bc3139a8-6...

245479dbec96c7eb2f3ce0a439e58b7099e40ef4 authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
inset function and update vignette

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112112 b...

d5c2a5302b57e7c66fcdb64b0c243634fb77bf16 authored about 9 years ago by Guangchuang Yu <[email protected]>
update news

3a162ab6d4fe74de1bfe4ed0c330eef7c6ea2f67 authored about 9 years ago by GuangchuangYu <[email protected]>
update vignettes

bcf3489567fc627470da8d18dc4d0140cbb06f0c authored about 9 years ago by GuangchuangYu <[email protected]>
inset

c0f6c3f65ef109b00344ef124032cb2de1682eeb authored about 9 years ago by GuangchuangYu <[email protected]>
update vignettes and fixed check

81d0bb9ae58d91ffbcf6a3c826ef75176f0137b4 authored about 9 years ago by GuangchuangYu <[email protected]>
update ggtree with new features according to ggplot2 v2

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111988 bc3139a8-6...

25ce9608ee910be40ef1db414ce98aa78b01a694 authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
update ggtree with new features according to ggplot2 v2

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111988 b...

af18d052c10b760645e454b4d4d086c6986e752b authored about 9 years ago by Guangchuang Yu <[email protected]>
update vignette

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111939 bc3139a8-6...

9f34e866de274824095118b53551f117e336f05c authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
update vignette

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111939 b...

7057aa914e3b236e28cdeb14ed29ed0ad471b10a authored about 9 years ago by Guangchuang Yu <[email protected]>
tree manipulation vignette

8858250a383a3290b71642e318a852b749bf234c authored about 9 years ago by GuangchuangYu <[email protected]>
tree visualization vignette

cf458a4111d8da10ae8047c3cae6d859527bdf06 authored about 9 years ago by GuangchuangYu <[email protected]>
tree import vignett

fdd4fefec4259edc4606e6c883c3250a428264ad authored about 9 years ago by GuangchuangYu <[email protected]>
typo in DESCRIPTION

bdb8b00c93e466d7eab9e7ab7c2a2ce82dda90fa authored about 9 years ago by GuangchuangYu <[email protected]>
depend ggplot2

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111818 b...

dfd0fbb28cd8db79c48c1703585e94d70a5887b3 authored about 9 years ago by Guangchuang Yu <[email protected]>
depend ggplot2

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111818 bc3139a8-6...

300addb9d192058de4df008f1510c7e2c90eb881 authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
fixed typo in DESCRIPTION

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111817 bc3139a8-6...

3425dfae6162caf5ffe0d2be07138a4c7b99528c authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
fixed typo in DESCRIPTION

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111817 b...

539335ec3fc4de70462fbc70f696f413e6bdbaca authored about 9 years ago by Guangchuang Yu <[email protected]>
typo in vignette

49ad6ffbc4e749195cb66f3388627ceb80f76ced authored about 9 years ago by GuangchuangYu <[email protected]>
clean up code

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111816 bc3139a8-6...

ca2be470527fa623f5c84acd1b569d461ed9217d authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
clean up code

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111816 b...

816d760c10a7567367f223f823bbf05b6de4c878 authored about 9 years ago by Guangchuang Yu <[email protected]>
lots of new layers

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111815 b...

cc06d22b59143e8228c74da6edf07ca60fc1d7bc authored about 9 years ago by Guangchuang Yu <[email protected]>
lots of new layers

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111815 bc3139a8-6...

3e4b5998d230155893ffd1d7257e8880731aadaa authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
remove tree.R and treeIO.R

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111814 b...

e7560e5cd5bd828adb75fef63461e0e90e784b7f authored about 9 years ago by Guangchuang Yu <[email protected]>
remove tree.R and treeIO.R

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111814 bc3139a8-6...

cafcd1c54e306879a432f24de31ecba0b0fa3fb6 authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
lots updates

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111813 bc3139a8-6...

f1f0d8d2ae1f725f19cdc5a77fabbb740ae6629e authored about 9 years ago by g.yu <g.yu@bc3139a8-67e5-0310-9ffc-ced21a209358>
lots updates

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111813 b...

6c9cd35586357528dbbed095850c1834a36c43d8 authored about 9 years ago by Guangchuang Yu <[email protected]>
geom_treescale, geom_cladelabel and MRCA

ff3800f72f872617e81fcb27448c32ae49f616d3 authored about 9 years ago by GuangchuangYu <[email protected]>
:boom: update links

ce25959701606f32d4f084cf193c922f1ba1ae2b authored about 9 years ago by GuangchuangYu <[email protected]>
:herb: now read.nhx works with scientific notation

a2ef7a0d542886456d69e8158c1c682bbbb7756d authored about 9 years ago by Guangchuang Yu <[email protected]>
rename feature when name conflict

5b5714c53723cad16f54792829c77acbfcb57b33 authored about 9 years ago by GuangchuangYu <[email protected]>
:herb: get_clade_position

4cdd87f14b4210e5a524b7aab93fd2e919cc5564 authored about 9 years ago by GuangchuangYu <[email protected]>
:herb: get_heatmap_column_position function

7ad9ef744720f96c89d101f902003e473f5dc3ac authored about 9 years ago by GuangchuangYu <[email protected]>
:herb: update getRoot

da9f9ad525251adeec3d0e6dd07a5d0f61efdf46 authored about 9 years ago by GuangchuangYu <[email protected]>
:sun_with_face: fixed bug

ca77e104996b4b2aba25e99471080f396b66b99f authored about 9 years ago by GuangchuangYu <[email protected]>
:sun_with_face: add comment

be42deac4f36ea8d9ad8cc6564c8e044703bb85c authored about 9 years ago by GuangchuangYu <[email protected]>
:sun: typo

dee3d0e2c2cec157ac886e8e6d514d2c19bdb9c1 authored about 9 years ago by GuangchuangYu <[email protected]>
:turtle: test edge_number to node_number

3d2c1a0e2af1882c787335dc8ebc490124c29c5c authored about 9 years ago by GuangchuangYu <[email protected]>
:seeding: fixed multiple groupOTU

17b89821255471810ffd0a6bd2fb11492536ebe3 authored about 9 years ago by GuangchuangYu <[email protected]>
seeding: fixed bug

20319171706fe0d0015e529c381878767777b0a4 authored about 9 years ago by GuangchuangYu <[email protected]>
nhx support

8de136df1a50abc8f4bde696d3de067f2f35fe60 authored about 9 years ago by GuangchuangYu <[email protected]>
add doc of phylomoji

49bd0b07493ffb43902130a4b85a5dbb67fed8ba authored about 9 years ago by GuangchuangYu <[email protected]>
update gheatmap

f8f7f7412dad03911213519f97ef36cad3636aa5 authored about 9 years ago by GuangchuangYu <[email protected]>
add angle for rectangular layout

a485b964ddea5a6e717b07fb560b530e41f468e4 authored about 9 years ago by GuangchuangYu <[email protected]>
bug fixed of parsing beast

f6af6e33e0dd538068ad576c958d8cdd0bec0a8a authored about 9 years ago by GuangchuangYu <[email protected]>
support phangorn

7794af6b50348ac40d75247fd7694e5c25425663 authored about 9 years ago by GuangchuangYu <[email protected]>
apeBootstrap

672f351647eb79830a25332cbc2307133167fa56 authored about 9 years ago by GuangchuangYu <[email protected]>
change angle to angle + 90, so that label will in radial direction

fa91c4f0c615a16ab27e9a4e198f0c59f7fb05bc authored about 9 years ago by GuangchuangYu <[email protected]>
calculate angle for fan layout

86986d0f3309d1ebdafc50fd9c62bf3317542fb1 authored about 9 years ago by GuangchuangYu <[email protected]>
optimize

4b41e6d2da6aa2ac47006aa6106f539bb50d9138 authored about 9 years ago by GuangchuangYu <[email protected]>
na.rm should be always passed to layer()

70ee69ab25f1fd9bbe1ff6a5e1d564f2ffbc09ff authored about 9 years ago by GuangchuangYu <[email protected]>
matching beast stats with tree using internal node number instead of label <2015-10-20, Tue>

52fe8ea3663c8b56d040801580d46982be249b2e authored about 9 years ago by GuangchuangYu <[email protected]>
BioC 3.3 branch

fed54ca76442218d1d26b9b2aa4e3c17332c59b0 authored about 9 years ago by GuangchuangYu <[email protected]>
Bumped version number of all packages after creation of 3.2 branch.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@109592 bc3139a8-...

6f44b79405be54ebb06ea809401e6bfee612fd29 authored about 9 years ago by d.tenenbaum <d.tenenbaum@bc3139a8-67e5-0310-9ffc-ced21a209358>
Bumped version number of all packages after creation of 3.2 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@109592 ...

01e0d69f24c4564409b0e0af22f78ba76d43b38c authored about 9 years ago by Dan Tenenbaum <[email protected]>
Bumped versions of all packages prior to creating 3.2 branch.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@109589 bc3139a8-...

c72620120c67ab617fd912989fef561724b7fd5b authored about 9 years ago by d.tenenbaum <d.tenenbaum@bc3139a8-67e5-0310-9ffc-ced21a209358>