1. ggtree
  2. man
  3. geom_range.Rd
Browse code

rename size aesthetic according to ggplot2 (3.4.0)

xiangpin authored on 07/07/2022 12:57:13
Showing 1 changed files
man/geom_range.Rd
History View file @ 69f2dbbf
... ... 
@@ -11,7 +11,7 @@ geom_range(range, center = "auto", ...)
11 11
12 12 
 \item{center}{center of the range, mean, median or auto (default, the center of the range)}
13 13
14 
-\item{...}{additional parameter, e.g. color, size, alpha}
14 
+\item{...}{additional parameter, e.g. color, linewidth, alpha}
15 15 
 }
16 16 
 \value{
17 17 
 ggplot layer
Browse code

update man files and fixed R check

Guangchuang Yu authored on 23/03/2022 04:13:34
Showing 1 changed files
man/geom_range.Rd
History View file @ fbeaa25d
... ... 
@@ -7,7 +7,7 @@
7 7 
 geom_range(range, center = "auto", ...)
8 8 
 }
9 9 
 \arguments{
10 
-\item{range}{range, e.g. "height_0.95_HPD"}
10 
+\item{range}{range(interval) to be displayed, e.g. "height_0.95_HPD"}
11 11
12 12 
 \item{center}{center of the range, mean, median or auto (default, the center of the range)}
13 13
... ... 
@@ -17,7 +17,12 @@ geom_range(range, center = "auto", ...)
17 17 
 ggplot layer
18 18 
 }
19 19 
 \description{
20 
-bar of range (HPD, range etc) to present uncertainty of evolutionary inference
20 
+horizontal bar of range (HPD, range etc) on nodes to present uncertainty of evolutionary inference
21 
+}
22 
+\references{
23 
+For demonstration of this function, please refer to chapter 5.2.4 of
24 
+\emph{Data Integration, Manipulation and Visualization of Phylogenetic Trees}
25 
+\url{http://yulab-smu.top/treedata-book/index.html} by Guangchuang Yu.
21 26 
 }
22 27 
 \author{
23 28 
 Guangchuang Yu
Browse code

update geom_range and scale_x_range

Guangchuang Yu authored on 24/07/2019 04:28:47
Showing 1 changed files
man/geom_range.Rd
History View file @ 238bfee3
... ... 
@@ -4,12 +4,12 @@
4 4 
 \alias{geom_range}
5 5 
 \title{geom_range}
6 6 
 \usage{
7 
-geom_range(range = "length_0.95_HPD", center = "x", ...)
7 
+geom_range(range, center = "auto", ...)
8 8 
 }
9 9 
 \arguments{
10 10 
 \item{range}{range, e.g. "height_0.95_HPD"}
11 11
12 
-\item{center}{center of the range, mean or median}
12 
+\item{center}{center of the range, mean, median or auto (default, the center of the range)}
13 13
14 14 
 \item{...}{additional parameter, e.g. color, size, alpha}
15 15 
 }
Browse code

geom_range

Guangchuang Yu authored on 23/07/2019 16:25:05
Showing 1 changed files
man/geom_range.Rd
History View file @ 1418c053
... ... 
@@ -4,13 +4,12 @@
4 4 
 \alias{geom_range}
5 5 
 \title{geom_range}
6 6 
 \usage{
7 
-geom_range(range = "length_0.95_HPD", branch.length = "branch.length",
8 
-  ...)
7 
+geom_range(range = "length_0.95_HPD", center = "x", ...)
9 8 
 }
10 9 
 \arguments{
11 10 
 \item{range}{range, e.g. "height_0.95_HPD"}
12 11
13 
-\item{branch.length}{corresponding branch.length}
12 
+\item{center}{center of the range, mean or median}
14 13
15 14 
 \item{...}{additional parameter, e.g. color, size, alpha}
16 15 
 }
Browse code

bug fixed of viewClade

Guangchuang Yu authored on 07/08/2018 12:07:15
Showing 1 changed files
man/geom_range.Rd
History View file @ c3727414
... ... 
@@ -4,7 +4,8 @@
4 4 
 \alias{geom_range}
5 5 
 \title{geom_range}
6 6 
 \usage{
7 
-geom_range(range = "length_0.95_HPD", branch.length = "branch.length", ...)
7 
+geom_range(range = "length_0.95_HPD", branch.length = "branch.length",
8 
+  ...)
8 9 
 }
9 10 
 \arguments{
10 11 
 \item{range}{range, e.g. "height_0.95_HPD"}
Browse code

remove beast object support as read.beast output treedata object in treeio <2017-12-05, Tue>

guangchuang yu authored on 05/12/2017 11:05:11
Showing 1 changed files
man/geom_range.Rd
History View file @ 13af7bc0
... ... 
@@ -4,11 +4,13 @@
4 4 
 \alias{geom_range}
5 5 
 \title{geom_range}
6 6 
 \usage{
7 
-geom_range(range = "height_0.95_HPD", ...)
7 
+geom_range(range = "length_0.95_HPD", branch.length = "branch.length", ...)
8 8 
 }
9 9 
 \arguments{
10 10 
 \item{range}{range, e.g. "height_0.95_HPD"}
11 11
12 
+\item{branch.length}{corresponding branch.length}
13 
+
12 14 
 \item{...}{additional parameter, e.g. color, size, alpha}
13 15 
 }
14 16 
 \value{
Browse code

geom_motif #148

guangchuang yu authored on 22/08/2017 08:22:37
Showing 1 changed files
man/geom_range.Rd
History View file @ 363c0555
... ... 
@@ -20,4 +20,3 @@ bar of range (HPD, range etc) to present uncertainty of evolutionary inference
20 20 
 \author{
21 21 
 Guangchuang Yu
22 22 
 }
23 
-
Browse code

update docs

guangchuang yu authored on 16/08/2017 02:36:13
Showing 1 changed files
man/geom_range.Rd
History View file @ f0e199ad
... ... 
@@ -20,3 +20,4 @@ bar of range (HPD, range etc) to present uncertainty of evolutionary inference
20 20 
 \author{
21 21 
 Guangchuang Yu
22 22 
 }
23 
+
Browse code

add extend parameter in geom_cladelabel

guangchuang yu authored on 26/07/2017 02:13:53
Showing 1 changed files
man/geom_range.Rd
History View file @ 353dfa09
... ... 
@@ -20,4 +20,3 @@ bar of range (HPD, range etc) to present uncertainty of evolutionary inference
20 20 
 \author{
21 21 
 Guangchuang Yu
22 22 
 }
23 
-
Browse code

geom_range

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@115592 bc3139a8-67e5-0310-9ffc-ced21a209358

Guangchuang Yu authored on 01/04/2016 08:12:07
Showing 1 changed files
man/geom_range.Rd
History View file @ 0bd36b2a
1 1 
new file mode 100644
... ... 
@@ -0,0 +1,23 @@
1 
+% Generated by roxygen2: do not edit by hand
2 
+% Please edit documentation in R/geom_range.R
3 
+\name{geom_range}
4 
+\alias{geom_range}
5 
+\title{geom_range}
6 
+\usage{
7 
+geom_range(range = "height_0.95_HPD", ...)
8 
+}
9 
+\arguments{
10 
+\item{range}{range, e.g. "height_0.95_HPD"}
11 
+
12 
+\item{...}{additional parameter, e.g. color, size, alpha}
13 
+}
14 
+\value{
15 
+ggplot layer
16 
+}
17 
+\description{
18 
+bar of range (HPD, range etc) to present uncertainty of evolutionary inference
19 
+}
20 
+\author{
21 
+Guangchuang Yu
22 
+}
23 
+