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generate documentations by pkgdown

Zuguang Gu authored on 18/10/2019 11:34:02
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deleted file mode 100644
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@@ -1,28 +0,0 @@
1
-\name{component_height-HeatmapList-method}
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-\alias{component_height,HeatmapList-method}
3
-\title{
4
-Height of Heatmap List Components
5
-}
6
-\description{
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-Height of Heatmap List Components
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-}
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-\usage{
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-\S4method{component_height}{HeatmapList}(object, k = HEATMAP_LIST_LAYOUT_COLUMN_COMPONENT)
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-}
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-\arguments{
13
-
14
-  \item{object}{A \code{\link{HeatmapList-class}} object.}
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-  \item{k}{Which component in the heatmap list. Values are in \code{ComplexHeatmap:::HEATMAP_LIST_LAYOUT_COLUMN_COMPONENT}.}
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-
17
-}
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-\value{
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-A \code{\link[grid]{unit}} object.
20
-}
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-\author{
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-Zuguang Gu <z.gu@dkfz.de>
23
-}
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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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@@ -24,4 +24,5 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
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+
27 28
 }
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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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@@ -24,5 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
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-
28 27
 }
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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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@@ -24,4 +24,5 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
27
+
27 28
 }
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add NEWs

Zuguang Gu authored on 30/12/2018 08:12:22
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@@ -24,5 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
27
-
28 27
 }
Browse code

documentation checked

Zuguang Gu authored on 23/10/2018 19:59:12
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@@ -1,22 +1,22 @@
1 1
 \name{component_height-HeatmapList-method}
2 2
 \alias{component_height,HeatmapList-method}
3 3
 \title{
4
-Height of each heatmap list component
4
+Height of Heatmap List Components
5 5
 }
6 6
 \description{
7
-Height of each heatmap list component
7
+Height of Heatmap List Components
8 8
 }
9 9
 \usage{
10 10
 \S4method{component_height}{HeatmapList}(object, k = HEATMAP_LIST_LAYOUT_COLUMN_COMPONENT)
11 11
 }
12 12
 \arguments{
13 13
 
14
-  \item{object}{a \code{\link{HeatmapList-class}} object.}
15
-  \item{k}{which component in the heatmap list, see \code{\link{HeatmapList-class}}.}
14
+  \item{object}{A \code{\link{HeatmapList-class}} object.}
15
+  \item{k}{Which component in the heatmap list. Values are in \code{ComplexHeatmap:::HEATMAP_LIST_LAYOUT_COLUMN_COMPONENT}.}
16 16
 
17 17
 }
18 18
 \value{
19
-A \code{\link[grid]{unit}} object
19
+A \code{\link[grid]{unit}} object.
20 20
 }
21 21
 \author{
22 22
 Zuguang Gu <z.gu@dkfz.de>
Browse code

fix some bugs

Zuguang Gu authored on 19/10/2018 19:08:59
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@@ -24,4 +24,5 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
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+
27 28
 }
Browse code

update

Zuguang Gu authored on 17/10/2018 06:09:36
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@@ -24,5 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
27
-
28 27
 }
Browse code

R CMD check passed

Zuguang Gu authored on 12/10/2018 19:19:48
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@@ -24,4 +24,5 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
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 NULL
27
+
27 28
 }
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update

jokergoo authored on 12/10/2018 15:28:37
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@@ -24,5 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
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 # There is no example
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 NULL
27
-
28 27
 }
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vignette check passed

Zuguang Gu authored on 20/09/2018 22:09:48
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@@ -24,4 +24,5 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 \examples{
25 25
 # There is no example
26 26
 NULL
27
+
27 28
 }
Browse code

R CMD check passed

Zuguang Gu authored on 20/09/2018 12:48:08
Showing1 changed files
1 1
old mode 100755
2 2
new mode 100644
... ...
@@ -7,7 +7,7 @@ Height of each heatmap list component
7 7
 Height of each heatmap list component
8 8
 }
9 9
 \usage{
10
-\S4method{component_height}{HeatmapList}(object, k = 1:7)
10
+\S4method{component_height}{HeatmapList}(object, k = HEATMAP_LIST_LAYOUT_COLUMN_COMPONENT)
11 11
 }
12 12
 \arguments{
13 13
 
... ...
@@ -22,6 +22,6 @@ A \code{\link[grid]{unit}} object
22 22
 Zuguang Gu <z.gu@dkfz.de>
23 23
 }
24 24
 \examples{
25
-# no example for this internal method
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-
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+# There is no example
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+NULL
27 27
 }
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: 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
Showing1 changed files
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@@ -7,11 +7,13 @@ Height of each heatmap list component
7 7
 Height of each heatmap list component
8 8
 }
9 9
 \usage{
10
-\S4method{component_height}{HeatmapList}(object, k = 1:7)}
10
+\S4method{component_height}{HeatmapList}(object, k = 1:7)
11
+}
11 12
 \arguments{
12 13
 
13 14
   \item{object}{a \code{\link{HeatmapList-class}} object.}
14 15
   \item{k}{which component in the heatmap list, see \code{\link{HeatmapList-class}}.}
16
+
15 17
 }
16 18
 \value{
17 19
 A \code{\link[grid]{unit}} object
... ...
@@ -21,4 +23,5 @@ Zuguang Gu <z.gu@dkfz.de>
21 23
 }
22 24
 \examples{
23 25
 # no example for this internal method
26
+
24 27
 }
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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@@ -2,11 +2,9 @@
2 2
 \alias{component_height,HeatmapList-method}
3 3
 \title{
4 4
 Height of each heatmap list component
5
-
6 5
 }
7 6
 \description{
8 7
 Height of each heatmap list component
9
-
10 8
 }
11 9
 \usage{
12 10
 \S4method{component_height}{HeatmapList}(object, k = 1:7)}
... ...
@@ -17,23 +15,10 @@ Height of each heatmap list component
17 15
 }
18 16
 \value{
19 17
 A \code{\link[grid]{unit}} object
20
-
21 18
 }
22 19
 \author{
23 20
 Zuguang Gu <z.gu@dkfz.de>
24
-
25 21
 }
26 22
 \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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-# no example for this internal method}
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+# no example for this internal method
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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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@@ -31,4 +31,9 @@ Zuguang Gu <z.gu@dkfz.de>
31 31
 
32 32
 
33 33
 
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+
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+
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+
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+
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+
34 39
 # no example for this internal method}
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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@@ -30,4 +30,5 @@ Zuguang Gu <z.gu@dkfz.de>
30 30
 
31 31
 
32 32
 
33
+
33 34
 # no example for this internal method}
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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@@ -26,4 +26,8 @@ Zuguang Gu <z.gu@dkfz.de>
26 26
 \examples{
27 27
 
28 28
 
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+
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+
31
+
32
+
29 33
 # no example for this internal method}
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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@@ -24,4 +24,6 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
26 26
 \examples{
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+
28
+
27 29
 # no example for this internal method}
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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@@ -24,5 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
26 26
 \examples{
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-
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 # no example for this internal method}
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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@@ -24,4 +24,5 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
26 26
 \examples{
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+
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 # no example for this internal method}
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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@@ -24,6 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
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 \examples{
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-
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-
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 # no example for this internal method}
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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@@ -24,4 +24,6 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
26 26
 \examples{
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+
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+
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 # no example for this internal method}
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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@@ -24,8 +24,4 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
26 26
 \examples{
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-
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-
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-# no example for this internal method
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-
31
-}
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+# no example for this internal method}
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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@@ -25,6 +25,7 @@ Zuguang Gu <z.gu@dkfz.de>
25 25
 }
26 26
 \examples{
27 27
 
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+
28 29
 # no example for this internal method
29 30
 
30 31
 }
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
Showing1 changed files
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@@ -24,4 +24,7 @@ Zuguang Gu <z.gu@dkfz.de>
24 24
 
25 25
 }
26 26
 \examples{
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-# no example for this internal method}
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+
28
+# no example for this internal method
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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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... ...
@@ -1,34 +1,27 @@
1 1
 \name{component_height-HeatmapList-method}
2 2
 \alias{component_height,HeatmapList-method}
3 3
 \title{
4
-Height of each heatmap list component  
5
-
4
+Height of each heatmap list component
6 5
 
7 6
 }
8 7
 \description{
9
-Height of each heatmap list component  
10
-
8
+Height of each heatmap list component
11 9
 
12 10
 }
13 11
 \usage{
14
-\S4method{component_height}{HeatmapList}(object, k = 1:7)
15
-}
12
+\S4method{component_height}{HeatmapList}(object, k = 1:7)}
16 13
 \arguments{
17 14
 
18 15
   \item{object}{a \code{\link{HeatmapList-class}} object.}
19 16
   \item{k}{which component in the heatmap list, see \code{\link{HeatmapList-class}}.}
20
-
21 17
 }
22 18
 \value{
23
-A \code{\link[grid]{unit}} object  
24
-
19
+A \code{\link[grid]{unit}} object
25 20
 
26 21
 }
27 22
 \author{
28
-Zuguang Gu <z.gu@dkfz.de>  
29
-
23
+Zuguang Gu <z.gu@dkfz.de>
30 24
 
31 25
 }
32 26
 \examples{
33
-# no example for this internal method
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-}
27
+# no example for this internal method}
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
Showing1 changed files
... ...
@@ -1,27 +1,34 @@
1 1
 \name{component_height-HeatmapList-method}
2 2
 \alias{component_height,HeatmapList-method}
3 3
 \title{
4
-Height of each heatmap list component
4
+Height of each heatmap list component  
5
+
5 6
 
6 7
 }
7 8
 \description{
8
-Height of each heatmap list component
9
+Height of each heatmap list component  
10
+
9 11
 
10 12
 }
11 13
 \usage{
12
-\S4method{component_height}{HeatmapList}(object, k = 1:7)}
14
+\S4method{component_height}{HeatmapList}(object, k = 1:7)
15
+}
13 16
 \arguments{
14 17
 
15 18
   \item{object}{a \code{\link{HeatmapList-class}} object.}
16 19
   \item{k}{which component in the heatmap list, see \code{\link{HeatmapList-class}}.}
20
+
17 21
 }
18 22
 \value{
19
-A \code{\link[grid]{unit}} object
23
+A \code{\link[grid]{unit}} object  
24
+
20 25
 
21 26
 }
22 27
 \author{
23
-Zuguang Gu <z.gu@dkfz.de>
28
+Zuguang Gu <z.gu@dkfz.de>  
29
+
24 30
 
25 31
 }
26 32
 \examples{
27
-# no example for this internal method}
33
+# no example for this internal method
34
+}
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
... ...
@@ -1,34 +1,27 @@
1 1
 \name{component_height-HeatmapList-method}
2 2
 \alias{component_height,HeatmapList-method}
3 3
 \title{
4
-Height of each heatmap list component  
5
-
4
+Height of each heatmap list component
6 5
 
7 6
 }
8 7
 \description{
9
-Height of each heatmap list component  
10
-
8
+Height of each heatmap list component
11 9
 
12 10
 }
13 11
 \usage{
14
-\S4method{component_height}{HeatmapList}(object, k = 1:7)
15
-}
12
+\S4method{component_height}{HeatmapList}(object, k = 1:7)}
16 13
 \arguments{
17 14
 
18 15
   \item{object}{a \code{\link{HeatmapList-class}} object.}
19 16
   \item{k}{which component in the heatmap list, see \code{\link{HeatmapList-class}}.}
20
-
21 17
 }
22 18
 \value{
23
-A \code{\link[grid]{unit}} object  
24
-
19
+A \code{\link[grid]{unit}} object
25 20
 
26 21
 }
27 22
 \author{
28
-Zuguang Gu <z.gu@dkfz.de>  
29
-
23
+Zuguang Gu <z.gu@dkfz.de>
30 24
 
31 25
 }
32 26
 \examples{
33
-# no example for this internal method
34
-}
27
+# no example for this internal method}
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
Showing1 changed files
1 1
new file mode 100644
... ...
@@ -0,0 +1,34 @@
1
+\name{component_height-HeatmapList-method}
2
+\alias{component_height,HeatmapList-method}
3
+\title{
4
+Height of each heatmap list component  
5
+
6
+
7
+}
8
+\description{
9
+Height of each heatmap list component  
10
+
11
+
12
+}
13
+\usage{
14
+\S4method{component_height}{HeatmapList}(object, k = 1:7)
15
+}
16
+\arguments{
17
+
18
+  \item{object}{a \code{\link{HeatmapList-class}} object.}
19
+  \item{k}{which component in the heatmap list, see \code{\link{HeatmapList-class}}.}
20
+
21
+}
22
+\value{
23
+A \code{\link[grid]{unit}} object  
24
+
25
+
26
+}
27
+\author{
28
+Zuguang Gu <z.gu@dkfz.de>  
29
+
30
+
31
+}
32
+\examples{
33
+# no example for this internal method
34
+}