1. ggtree
  2. man
  3. get_taxa_name.Rd
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update man files and fixed R check

Guangchuang Yu authored on 23/03/2022 04:13:34
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ fbeaa25d
... ... 
@@ -7,7 +7,7 @@
7 7 
 get_taxa_name(tree_view = NULL, node = NULL)
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 }
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 \arguments{
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-\item{tree_view}{tree view (i.e. the ggtree object). If tree_view is NULL, the last ggplot will be used.}
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+\item{tree_view}{tree view (i.e. the ggtree object). If tree_view is NULL, the last ggplot object will be used.}
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 \item{node}{internal node number to specify a clade. If NULL, using the whole tree}
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 }
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update man

Guangchuang Yu authored on 30/08/2020 09:34:25
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 95bd0aff
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@@ -9,14 +9,23 @@ get_taxa_name(tree_view = NULL, node = NULL)
9 9 
 \arguments{
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 \item{tree_view}{tree view (i.e. the ggtree object). If tree_view is NULL, the last ggplot will be used.}
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-\item{node}{internal node number}
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+\item{node}{internal node number to specify a clade. If NULL, using the whole tree}
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 }
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 \value{
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-taxa name vector
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+ordered taxa name vector
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 }
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 \description{
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 get taxa name of a selected node (or tree if node=NULL) sorted by their position in plotting
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 }
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+\details{
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+This function extract an ordered vector of the tips from selected clade or the whole tree
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+based on the ggtree() plot.
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+}
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+\examples{
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+tree <- rtree(30)
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+p <- ggtree(tree)
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+get_taxa_name(p)
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+}
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 \author{
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 Guangchuang Yu
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 }
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zoomClade and geom_zoom_clade

Guangchuang Yu authored on 03/08/2020 16:21:17
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 764fb630
... ... 
@@ -7,9 +7,9 @@
7 7 
 get_taxa_name(tree_view = NULL, node = NULL)
8 8 
 }
9 9 
 \arguments{
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-\item{tree_view}{tree view}
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+\item{tree_view}{tree view (i.e. the ggtree object). If tree_view is NULL, the last ggplot will be used.}
11 11
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-\item{node}{node}
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+\item{node}{internal node number}
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 }
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 \value{
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 taxa name vector
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geom_motif #148

guangchuang yu authored on 22/08/2017 08:22:37
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 363c0555
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@@ -20,4 +20,3 @@ get taxa name of a selected node (or tree if node=NULL) sorted by their position
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 \author{
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 Guangchuang Yu
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 }
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-
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update docs

guangchuang yu authored on 16/08/2017 02:36:13
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ f0e199ad
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@@ -20,3 +20,4 @@ get taxa name of a selected node (or tree if node=NULL) sorted by their position
20 20 
 \author{
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 Guangchuang Yu
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 }
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+
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add extend parameter in geom_cladelabel

guangchuang yu authored on 26/07/2017 02:13:53
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 353dfa09
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@@ -20,4 +20,3 @@ get taxa name of a selected node (or tree if node=NULL) sorted by their position
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 \author{
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 Guangchuang Yu
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 }
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-
Browse code

fixed geom_tiplab(geom="label")

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@127093 bc3139a8-67e5-0310-9ffc-ced21a209358

Guangchuang Yu authored on 02/03/2017 03:05:18
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 885fa776
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@@ -4,7 +4,7 @@
4 4 
 \alias{get_taxa_name}
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 \title{get_taxa_name}
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 \usage{
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-get_taxa_name(tree_view = NULL, node)
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+get_taxa_name(tree_view = NULL, node = NULL)
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 }
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 \arguments{
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 \item{tree_view}{tree view}
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@@ -15,7 +15,7 @@ get_taxa_name(tree_view = NULL, node)
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 taxa name vector
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 }
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 \description{
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-get taxa name of a selected node
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+get taxa name of a selected node (or tree if node=NULL) sorted by their position in plotting
19 19 
 }
20 20 
 \author{
21 21 
 Guangchuang Yu
Browse code

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 bc3139a8-67e5-0310-9ffc-ced21a209358

Guangchuang Yu authored on 13/01/2016 07:47:55
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 0b5c08bd
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@@ -1,10 +1,10 @@
1 1 
 % Generated by roxygen2: do not edit by hand
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-% Please edit documentation in R/ggtree.R
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+% Please edit documentation in R/clade-functions.R
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 \name{get_taxa_name}
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 \alias{get_taxa_name}
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 \title{get_taxa_name}
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 \usage{
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-get_taxa_name(tree_view, node)
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+get_taxa_name(tree_view = NULL, node)
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 }
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 \arguments{
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 \item{tree_view}{tree view}
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lots updates

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111813 bc3139a8-67e5-0310-9ffc-ced21a209358

Guangchuang Yu authored on 22/12/2015 04:08:02
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 6c9cd355
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@@ -1,4 +1,4 @@
1 
-% Generated by roxygen2 (4.1.1): do not edit by hand
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+% Generated by roxygen2: do not edit by hand
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 % Please edit documentation in R/ggtree.R
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 \name{get_taxa_name}
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 \alias{get_taxa_name}
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flip and rotate

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@106546 bc3139a8-67e5-0310-9ffc-ced21a209358

Guangchuang Yu authored on 19/07/2015 12:49:14
Showing 1 changed files
man/get_taxa_name.Rd
History View file @ 61678cbb
1 1 
new file mode 100644
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@@ -0,0 +1,23 @@
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+% Generated by roxygen2 (4.1.1): do not edit by hand
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+% Please edit documentation in R/ggtree.R
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+\name{get_taxa_name}
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+\alias{get_taxa_name}
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+\title{get_taxa_name}
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+\usage{
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+get_taxa_name(tree_view, node)
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+}
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+\arguments{
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+\item{tree_view}{tree view}
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+
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+\item{node}{node}
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+}
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+\value{
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+taxa name vector
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+}
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+\description{
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+get taxa name of a selected node
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+}
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+\author{
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+Guangchuang Yu
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+}
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+