GuangchuangYu authored on 20/12/2016 16:39:07
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-% Generated by roxygen2: do not edit by hand |
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-% Please edit documentation in R/AllClasses.R |
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-\docType{class}
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-\name{beast-class}
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-\alias{beast-class}
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-\alias{get.tree,beast-method}
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-\title{Class "beast"
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-This class stores information of beast output} |
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-\description{
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-Class "beast" |
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-This class stores information of beast output |
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-} |
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-\section{Slots}{
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- |
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-\describe{
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-\item{\code{fields}}{beast statistic variables}
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- |
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-\item{\code{treetext}}{tree text in beast file}
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- |
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-\item{\code{phylo}}{tree phylo object}
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- |
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-\item{\code{translation}}{tip number to name translation in beast file}
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- |
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-\item{\code{stats}}{beast statistics}
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- |
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-\item{\code{file}}{beast file, nexus format}
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- |
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-\item{\code{extraInfo}}{extra information}
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-}} |
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-\author{
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-Guangchuang Yu \url{http://guangchuangyu.github.io}
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-} |
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-\seealso{
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-\code{\link{show}} \code{\link{get.fields}}
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- \code{\link{ggtree}}
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-} |
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-\keyword{classes}
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- |
git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@112578 bc3139a8-67e5-0310-9ffc-ced21a209358
g.yu authored on 15/01/2016 04:55:05
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@@ -28,7 +28,7 @@ This class stores information of beast output |
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\item{\code{extraInfo}}{extra information}
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}} |
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\author{
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-Guangchuang Yu \url{http://ygc.name}
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+Guangchuang Yu \url{http://guangchuangyu.github.io}
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} |
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\seealso{
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\code{\link{show}} \code{\link{get.fields}}
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git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@111813 bc3139a8-67e5-0310-9ffc-ced21a209358
g.yu authored on 22/12/2015 04:08:02
Commit id: 652bb7c24e092a61c71765d9ae2de1e384b1c408
update vignette to add example of merge_tree <2015-04-29, Wed>
Commit id: ac252d451f6b2e5b0d27c055e050e1e42a6ffe56
add examples folder in inst that contains sample data <2015-04-29, Wed>
Commit id: d3bb757a48866f960e5c3b5c4da088241a410deb
in addition to parsing beast time scale tree in XXX_year[\\.\\d]*, now supports XXX/year[\\.\\d]*
Commit id: 33d9f8a12db641fe8580a20e3a2b51f4798fd96f
update gplot, now rowname of heatmap will not be displayed <2015-04-28, Tue>
Commit id: 94b64487871856f3394ed53d1ab55a4b6abc0baa
add line break if substitution longer than 50 character <2015-04-28, Tue>
Commit id: 396f41d759d1eb1ffa2b8af9d1b9eda695afe110
support calculating branch for time scale tree
Commit id: 0ba9f78c1626ec0fa1c503ac8b6f50e363976586
update vignette
Commit id: 5510c5f96044238cdeca127c9514b9a02851ecdb
remove parsing tip sequence from mlb and mlc file <2015-04-28, Tue>
Commit id: fc375e2b9825d840855c6276cf4301802f3e5bdc
o remove tip.fasfile in read.paml_rst for rstfile already contains tip sequence <2015-04-28, Tue>
Commit id: 03109db58c26037aeab23dbaf372638edbad5f67
scale_color accepts user specific interval and output contains scale attribute that can be used for adding legend <2015-04-28, Tue>
Commit id: 7c5829cfa47d36db179fd8b0c089a5c4f34ff345
extend fortify methods to support additional fields <2015-04-28, Tue>
Commit id: 1b0d72edd2f8e299b56296bc6066259a682128ad
extend tree class to support additional info by merging two tree <2015-04-28, Tue>
Commit id: a8b2f5480b31e0bef233e0483966afc4ea5ef9d6
extend get.fields methods to support additional fields <2015-04-28, Tue>
Commit id: 70831ecc379dbfc6f77cd1373d3a0e03241bbf4d
implement merge_tree function to merge two tree objects into one
git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@103244 bc3139a8-67e5-0310-9ffc-ced21a209358
g.yu authored on 29/04/2015 10:37:43
Commit id: ca17acc22b608158936b9c2790bff2f7504f38d9
add author
git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@103112 bc3139a8-67e5-0310-9ffc-ced21a209358
g.yu authored on 27/04/2015 03:15:40
git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ggtree@98340 bc3139a8-67e5-0310-9ffc-ced21a209358
m.carlson authored on 14/01/2015 21:22:07
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new file mode 100644 |
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+% Generated by roxygen2 (4.1.0): do not edit by hand |
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+% Please edit documentation in R/AllClasses.R |
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+\docType{class}
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+\name{beast-class}
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+\alias{beast-class}
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+\alias{get.tree,beast-method}
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+\title{Class "beast"
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+This class stores information of beast output} |
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+\description{
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+Class "beast" |
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+This class stores information of beast output |
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+} |
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+\section{Slots}{
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+ |
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+\describe{
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+\item{\code{fields}}{beast statistic variables}
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+ |
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+\item{\code{treetext}}{tree text in beast file}
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+ |
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+\item{\code{phylo}}{tree phylo object}
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+ |
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+\item{\code{translation}}{tip number to name translation in beast file}
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+ |
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+\item{\code{stats}}{beast statistics}
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+ |
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+\item{\code{file}}{beast file, nexus format}
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+}} |
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+\author{
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+Guangchuang Yu \url{http://ygc.name}
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+} |
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+\seealso{
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+\code{\link{show}} \code{\link{get.fields}}
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+ \code{\link{ggtree}}
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+} |
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+\keyword{classes}
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+ |