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generate documentations by pkgdown

Zuguang Gu authored on 18/10/2019 11:34:02
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-\name{SingleAnnotation-class}
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-\docType{class}
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-\alias{SingleAnnotation-class}
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-\title{
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-Class for a Single Annotation
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-}
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-\description{
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-Class for a Single Annotation
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-}
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-\details{
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-The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
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-methods for drawing annotation graphics.
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-}
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-\section{Methods}{
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-The \code{\link{SingleAnnotation-class}} provides following methods:
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-
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-\itemize{
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-  \item \code{\link{SingleAnnotation}}: constructor method
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-  \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
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-}}
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-\seealso{
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-The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}}
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-contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.
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-}
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-\author{
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-Zuguang Gu <z.gu@dkfz.de>
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-}
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-\examples{
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-# There is no example
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-NULL
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-
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-}
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add jitter argument to Heatmap()

Zuguang Gu authored on 28/09/2019 08:37:13
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@@ -28,4 +28,5 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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+
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 }
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use pkgdown to build the doc site

Zuguang Gu authored on 24/09/2019 21:01:04
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@@ -28,5 +28,4 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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-
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 }
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set cluster_slice to FALSE for character matrix

Zuguang Gu authored on 18/01/2019 10:43:26
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@@ -28,4 +28,5 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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+
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 }
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add NEWs

Zuguang Gu authored on 30/12/2018 08:12:22
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@@ -28,5 +28,4 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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-
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 }
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fix some bugs

Zuguang Gu authored on 19/10/2018 19:08:59
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@@ -28,4 +28,5 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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+
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 }
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update

Zuguang Gu authored on 17/10/2018 06:09:36
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@@ -28,5 +28,4 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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-
32 31
 }
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R CMD check passed

Zuguang Gu authored on 12/10/2018 19:19:48
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@@ -28,4 +28,5 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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+
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 }
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update

jokergoo authored on 12/10/2018 15:28:37
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@@ -28,5 +28,4 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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 # There is no example
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 NULL
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-
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 }
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vignette check passed

Zuguang Gu authored on 20/09/2018 22:09:48
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@@ -28,4 +28,5 @@ Zuguang Gu <z.gu@dkfz.de>
28 28
 \examples{
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 # There is no example
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 NULL
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+
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 }
Browse code

R CMD check passed

Zuguang Gu authored on 20/09/2018 12:48:08
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old mode 100755
2 2
new mode 100644
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@@ -2,18 +2,12 @@
2 2
 \docType{class}
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 \alias{SingleAnnotation-class}
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 \title{
5
-Class for a single annotation
5
+Class for a Single Annotation
6 6
 }
7 7
 \description{
8
-Class for a single annotation
8
+Class for a Single Annotation
9 9
 }
10 10
 \details{
11
-A complex heatmap always has more than one annotations on rows and columns. Here
12
-the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations.
13
-The most simple annotation is one row or one column grids in which different colors
14
-represent different classes of the data. The annotation can also be more complex
15
-graphics, such as a boxplot that shows data distribution in corresponding row or column.
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-
17 11
 The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
18 12
 methods for drawing annotation graphics.
19 13
 }
... ...
@@ -32,7 +26,6 @@ contains a list of \code{\link{SingleAnnotation-class}} objects and is used to a
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 Zuguang Gu <z.gu@dkfz.de>
33 27
 }
34 28
 \examples{
35
-# for examples, please go to `SingleAnnotation` method page
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+# There is no example
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 NULL
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-
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 }
Browse code

Merge branch 'master' into devel

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@108253 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 07/09/2015 20:39:32
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1 1
old mode 100644
2 2
new mode 100755
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: db263179df8a28bd25eb5afcf64aa9c37b2fdd32

refresh docs



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107358 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 12/08/2015 22:49:59
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@@ -13,11 +13,13 @@ the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations.
13 13
 The most simple annotation is one row or one column grids in which different colors
14 14
 represent different classes of the data. The annotation can also be more complex
15 15
 graphics, such as a boxplot that shows data distribution in corresponding row or column.
16
+
16 17
 The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
17 18
 methods for drawing annotation graphics.
18 19
 }
19 20
 \section{Methods}{
20 21
 The \code{\link{SingleAnnotation-class}} provides following methods:
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+
21 23
 \itemize{
22 24
   \item \code{\link{SingleAnnotation}}: constructor method
23 25
   \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 1de356e1d1343725223e03ff696f931d80b2842b

Merge branch 'master' of https://github.com/jokergoo/mheatmap


Commit id: 478962957a34b7a5e87c8336989bae3df54f9559

change default colors



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107356 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 12/08/2015 22:03:22
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@@ -21,9 +21,7 @@ The \code{\link{SingleAnnotation-class}} provides following methods:
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 \itemize{
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   \item \code{\link{SingleAnnotation}}: constructor method
23 23
   \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
24
-}
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-
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-}
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+}}
27 25
 \seealso{
28 26
 The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}}
29 27
 contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.
... ...
@@ -34,4 +32,5 @@ Zuguang Gu <z.gu@dkfz.de>
34 32
 \examples{
35 33
 # for examples, please go to `SingleAnnotation` method page
36 34
 NULL
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+
37 36
 }
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: f1b195419490dad46029cf7b681508ed21ba8c60

refreshed documentations



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107316 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 11/08/2015 10:42:08
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@@ -3,11 +3,9 @@
3 3
 \alias{SingleAnnotation-class}
4 4
 \title{
5 5
 Class for a single annotation
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-
7 6
 }
8 7
 \description{
9 8
 Class for a single annotation
10
-
11 9
 }
12 10
 \details{
13 11
 A complex heatmap always has more than one annotations on rows and columns. Here
... ...
@@ -15,14 +13,11 @@ the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations.
15 13
 The most simple annotation is one row or one column grids in which different colors
16 14
 represent different classes of the data. The annotation can also be more complex
17 15
 graphics, such as a boxplot that shows data distribution in corresponding row or column.
18
-
19 16
 The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
20 17
 methods for drawing annotation graphics.
21
-
22 18
 }
23 19
 \section{Methods}{
24 20
 The \code{\link{SingleAnnotation-class}} provides following methods:
25
-
26 21
 \itemize{
27 22
   \item \code{\link{SingleAnnotation}}: constructor method
28 23
   \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
... ...
@@ -32,24 +27,11 @@ The \code{\link{SingleAnnotation-class}} provides following methods:
32 27
 \seealso{
33 28
 The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}}
34 29
 contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.
35
-
36 30
 }
37 31
 \author{
38 32
 Zuguang Gu <z.gu@dkfz.de>
39
-
40 33
 }
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 \examples{
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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 # for examples, please go to `SingleAnnotation` method page
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-NULL}
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+NULL
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+}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 262e3960558c1f61b986f5be7a2ffd4599f704fa

comprehensive modifications



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107311 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 10/08/2015 22:17:54
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@@ -46,5 +46,10 @@ Zuguang Gu <z.gu@dkfz.de>
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47 47
 
48 48
 
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+
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+
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+
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+
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 73171be89c157222e8e71e85daa8a37ce509a4e2

add border argument in anno_* family functions



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107201 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 06/08/2015 17:46:06
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@@ -45,5 +45,6 @@ Zuguang Gu <z.gu@dkfz.de>
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46 46
 
47 47
 
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+
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 # for examples, please go to `SingleAnnotation` method page
49 50
 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 3429d28233ef2cbeafcd05307042d7c7aa54a2a2

add decorate* family functions



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107197 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 06/08/2015 16:40:59
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@@ -41,5 +41,9 @@ Zuguang Gu <z.gu@dkfz.de>
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 \examples{
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43 43
 
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+
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+
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+
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+
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: d5adc92bdbf27b45a6a4b5c7e29d2e4fe8380194

allow reordering



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@107130 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 04/08/2015 20:24:37
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@@ -39,5 +39,7 @@ Zuguang Gu <z.gu@dkfz.de>
39 39
 
40 40
 }
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 \examples{
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+
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+
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 174dbdcbcad3be858d664784793f1b2424acc2c0

remove plot.HeatmapList and print.HeatmapList



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@106530 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 18/07/2015 18:14:29
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@@ -39,6 +39,5 @@ Zuguang Gu <z.gu@dkfz.de>
39 39
 
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 }
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 \examples{
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-
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 4cbce102eabb1633fc8980b1374795bfb44507df

Merge branch 'master' of https://github.com/jokergoo/ComplexHeatmap


Commit id: a15bbec76c85c15bc27273ce15f5118ea087132f

refreshed documentatinos


Commit id: b1fe0a94aa09a4a47e5a02383ce662580f057bdc

ColorMapping object has default value for name slot



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@106487 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 16/07/2015 15:21:23
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@@ -39,5 +39,6 @@ Zuguang Gu <z.gu@dkfz.de>
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 }
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 \examples{
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: ff9ffa810ca9f16a253861d97301062962dbe38b

titles support expression now



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@106147 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 13/07/2015 21:26:16
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@@ -39,7 +39,5 @@ Zuguang Gu <z.gu@dkfz.de>
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40 40
 }
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 \examples{
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-
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-
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: e811f8100ef035ff75c16312b3e5112cc82d4a49

continuous legend is supported



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@106027 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 13/07/2015 10:21:55
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@@ -39,5 +39,7 @@ Zuguang Gu <z.gu@dkfz.de>
39 39
 
40 40
 }
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 \examples{
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+
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+
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 # for examples, please go to `SingleAnnotation` method page
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 NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 2786dac4ddaa97c69cc24e29e121ed1a1624cdf4

Merge branch 'master' of https://github.com/jokergoo/mheatmap


Commit id: a61c101325601aa0d4d3ba81e10c33d4a8b34c63

rows can be split if providing a clustering object



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@105855 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 06/07/2015 22:31:19
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@@ -39,9 +39,5 @@ Zuguang Gu <z.gu@dkfz.de>
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 }
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 \examples{
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-
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-
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 # for examples, please go to `SingleAnnotation` method page
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-NULL
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-
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-}
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+NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 9d7fc297a370b44dd3bfb12696ed9eac33aed48a

refreshed documentations



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@105365 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 23/06/2015 10:24:06
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@@ -40,6 +40,7 @@ Zuguang Gu <z.gu@dkfz.de>
40 40
 }
41 41
 \examples{
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 # for examples, please go to `SingleAnnotation` method page
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 NULL
45 46
 
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 1d5cea822fed8ed91d7ead49f520f719b3fecfd9

refreshed documentations



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@105355 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 23/06/2015 08:33:59
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@@ -39,5 +39,8 @@ Zuguang Gu <z.gu@dkfz.de>
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 }
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 \examples{
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 # for examples, please go to `SingleAnnotation` method page
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-NULL}
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+NULL
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+
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+}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 1682e4aed696b8fa901530ebc6b9d67ad2a013ad

refresh documentations and NAMESPACE



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@105345 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 22/06/2015 21:57:04
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@@ -2,43 +2,42 @@
2 2
 \docType{class}
3 3
 \alias{SingleAnnotation-class}
4 4
 \title{
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-Class for a single annotation  
6
-
5
+Class for a single annotation
7 6
 
8 7
 }
9 8
 \description{
10
-Class for a single annotation  
11
-
9
+Class for a single annotation
12 10
 
13 11
 }
14 12
 \details{
15
-A complex heatmap always has more than one annotations on rows and columns. Here the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations. The most simple annotation is one row or one column grids in which different colors represent different classes of the data. The annotation can also be more complex graphics, such as a boxplot that shows data distribution in corresponding row or column.  
16
-
17
-The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides methods for drawing annotation graphics.  
13
+A complex heatmap always has more than one annotations on rows and columns. Here
14
+the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations.
15
+The most simple annotation is one row or one column grids in which different colors
16
+represent different classes of the data. The annotation can also be more complex
17
+graphics, such as a boxplot that shows data distribution in corresponding row or column.
18 18
 
19
+The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
20
+methods for drawing annotation graphics.
19 21
 
20 22
 }
21 23
 \section{Methods}{
22
-The \code{\link{SingleAnnotation-class}} provides following methods:  
24
+The \code{\link{SingleAnnotation-class}} provides following methods:
23 25
 
24 26
 \itemize{
25 27
   \item \code{\link{SingleAnnotation}}: constructor method
26 28
   \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
27 29
 }
28 30
 
29
-
30 31
 }
31 32
 \seealso{
32
-The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}} contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.  
33
-
33
+The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}}
34
+contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.
34 35
 
35 36
 }
36 37
 \author{
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-Zuguang Gu <z.gu@dkfz.de>  
38
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+Zuguang Gu <z.gu@dkfz.de>
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 }
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 \examples{
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 # for examples, please go to `SingleAnnotation` method page
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-NULL
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-}
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+NULL}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: ff6ad79beeef75c709dc08588bb942ad86de9761

rotation for heatmap title supported



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@105315 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 22/06/2015 15:09:06
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@@ -2,42 +2,43 @@
2 2
 \docType{class}
3 3
 \alias{SingleAnnotation-class}
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 \title{
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-Class for a single annotation
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+Class for a single annotation  
6
+
6 7
 
7 8
 }
8 9
 \description{
9
-Class for a single annotation
10
+Class for a single annotation  
11
+
10 12
 
11 13
 }
12 14
 \details{
13
-A complex heatmap always has more than one annotations on rows and columns. Here
14
-the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations.
15
-The most simple annotation is one row or one column grids in which different colors
16
-represent different classes of the data. The annotation can also be more complex
17
-graphics, such as a boxplot that shows data distribution in corresponding row or column.
15
+A complex heatmap always has more than one annotations on rows and columns. Here the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations. The most simple annotation is one row or one column grids in which different colors represent different classes of the data. The annotation can also be more complex graphics, such as a boxplot that shows data distribution in corresponding row or column.  
16
+
17
+The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides methods for drawing annotation graphics.  
18 18
 
19
-The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
20
-methods for drawing annotation graphics.
21 19
 
22 20
 }
23 21
 \section{Methods}{
24
-The \code{\link{SingleAnnotation-class}} provides following methods:
22
+The \code{\link{SingleAnnotation-class}} provides following methods:  
25 23
 
26 24
 \itemize{
27 25
   \item \code{\link{SingleAnnotation}}: constructor method
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   \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
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 }
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+
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 }
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 \seealso{
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-The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}}
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-contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.
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+The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}} contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.  
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+
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 }
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 \author{
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-Zuguang Gu <z.gu@dkfz.de>
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+Zuguang Gu <z.gu@dkfz.de>  
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+
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 }
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 \examples{
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 # for examples, please go to `SingleAnnotation` method page
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-NULL}
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+NULL
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+}
Browse code

Commit made by the Bioconductor Git-SVN bridge.

Commit id: 6cf15a1b2514d9c86295206a55c9d5efadc00f70

check row orders



git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@105276 bc3139a8-67e5-0310-9ffc-ced21a209358

z.gu authored on 21/06/2015 17:44:09
Showing1 changed files
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@@ -2,43 +2,42 @@
2 2
 \docType{class}
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 \alias{SingleAnnotation-class}
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 \title{
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-Class for a single annotation  
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-
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+Class for a single annotation
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 }
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 \description{
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-Class for a single annotation  
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-
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+Class for a single annotation
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 }
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 \details{
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-A complex heatmap always has more than one annotations on rows and columns. Here the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations. The most simple annotation is one row or one column grids in which different colors represent different classes of the data. The annotation can also be more complex graphics, such as a boxplot that shows data distribution in corresponding row or column.  
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-
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-The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides methods for drawing annotation graphics.  
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+A complex heatmap always has more than one annotations on rows and columns. Here
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+the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations.
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+The most simple annotation is one row or one column grids in which different colors
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+represent different classes of the data. The annotation can also be more complex
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+graphics, such as a boxplot that shows data distribution in corresponding row or column.
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+The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides
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+methods for drawing annotation graphics.
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 }
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 \section{Methods}{
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-The \code{\link{SingleAnnotation-class}} provides following methods:  
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+The \code{\link{SingleAnnotation-class}} provides following methods:
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 \itemize{
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   \item \code{\link{SingleAnnotation}}: constructor method
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   \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
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 }
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-
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 }
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 \seealso{
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-The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}} contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.  
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-
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+The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}}
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+contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.
34 35
 
35 36
 }
36 37
 \author{
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-Zuguang Gu <z.gu@dkfz.de>  
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-
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+Zuguang Gu <z.gu@dkfz.de>
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 }
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 \examples{
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 # for examples, please go to `SingleAnnotation` method page
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-NULL
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-}
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+NULL}
Browse code

add package to repository

ComplexHeatmap/ podkat/ RBM/


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ComplexHeatmap@101658 bc3139a8-67e5-0310-9ffc-ced21a209358

s.arora authored on 31/03/2015 18:31:58
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1 1
new file mode 100644
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@@ -0,0 +1,44 @@
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+\name{SingleAnnotation-class}
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+\docType{class}
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+\alias{SingleAnnotation-class}
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+\title{
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+Class for a single annotation  
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+
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+
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+}
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+\description{
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+Class for a single annotation  
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+
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+
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+}
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+\details{
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+A complex heatmap always has more than one annotations on rows and columns. Here the \code{\link{SingleAnnotation-class}} defines the basic unit of annotations. The most simple annotation is one row or one column grids in which different colors represent different classes of the data. The annotation can also be more complex graphics, such as a boxplot that shows data distribution in corresponding row or column.  
16
+
17
+The \code{\link{SingleAnnotation-class}} is used for storing data for a single annotation and provides methods for drawing annotation graphics.  
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+
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+
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+}
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+\section{Methods}{
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+The \code{\link{SingleAnnotation-class}} provides following methods:  
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+
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+\itemize{
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+  \item \code{\link{SingleAnnotation}}: constructor method
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+  \item \code{\link{draw,SingleAnnotation-method}}: draw the single annotation.
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+}
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+
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+
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+}
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+\seealso{
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+The \code{\link{SingleAnnotation-class}} is always used internally. The public \code{\link{HeatmapAnnotation-class}} contains a list of \code{\link{SingleAnnotation-class}} objects and is used to add annotation graphics on heatmaps.  
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+
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+
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+}
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+\author{
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+Zuguang Gu <z.gu@dkfz.de>  
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+
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+
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+}
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+\examples{
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+# for examples, please go to `SingleAnnotation` method page
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+NULL
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+}