Last data update: 2014.03.03

ComplexHeatmap

Package: ComplexHeatmap
Type: Package
Title: Making Complex Heatmaps
Version: 1.10.2
Date: 2016-4-12
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Depends: R (>= 3.1.2), grid, graphics, stats, grDevices
Imports: methods, circlize (>= 0.3.4), GetoptLong, colorspace,
RColorBrewer, dendextend (>= 1.0.1), GlobalOptions (>= 0.0.10)
Suggests: testthat (>= 0.3), knitr, markdown, cluster, MASS, pvclust,
dendsort, HilbertCurve, Cairo, png, jpeg, tiff
VignetteBuilder: knitr
Description: Complex heatmaps are efficient to visualize associations
between different sources of data sets and reveal potential structures.
Here the ComplexHeatmap package provides a highly flexible way to arrange
multiple heatmaps and supports self-defined annotation graphics.
biocViews: Software, Visualization, Sequencing
URL: https://github.com/jokergoo/ComplexHeatmap
License: GPL (>= 2)
Packaged: 2016-05-16 05:23:20 UTC; biocbuild
Repository: Bioconductor
Date/Publication: 2016-4-12 00:00:00
NeedsCompilation: no

● BiocViews: Sequencing, Software, Visualization
● 101 images, 117 functions, 0 datasets
● Reverse Depends: 2

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ComplexHeatmap' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ComplexHeatmap'
    finding HTML links ... done
    AdditiveUnit-class                      html  
    AdditiveUnit                            html  
    ColorMapping-class                      html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/ColorMapping-class.rd:21: missing file link 'grob'
    ColorMapping                            html  
    ComplexHeatmap-package                  html  
    Heatmap-class                           html  
    Heatmap                                 html  
    HeatmapAnnotation-class                 html  
    HeatmapAnnotation                       html  
    HeatmapList-class                       html  
    HeatmapList                             html  
    Legend                                  html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/Legend.rd:47: missing file link 'grob'
    SingleAnnotation-class                  html  
    SingleAnnotation                        html  
    add.AdditiveUnit                        html  
    add_heatmap-Heatmap-method              html  
    add_heatmap-HeatmapAnnotation-method    html  
    add_heatmap-HeatmapList-method          html  
    add_heatmap-dispatch                    html  
    anno_barplot                            html  
    anno_boxplot                            html  
    anno_density                            html  
    anno_histogram                          html  
    anno_link                               html  
    anno_points                             html  
    anno_text                               html  
    annotation_legend_size-HeatmapList-method
                                            html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/annotation_legend_size-HeatmapList-method.rd:16: missing file link 'grob'
    color_mapping_legend-ColorMapping-method
                                            html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/color_mapping_legend-ColorMapping-method.rd:58: missing file link 'grob'
    columnAnnotation                        html  
    column_anno_barplot                     html  
    column_anno_boxplot                     html  
    column_anno_density                     html  
    column_anno_histogram                   html  
    column_anno_link                        html  
    column_anno_points                      html  
    column_anno_text                        html  
    column_dend-Heatmap-method              html  
    column_dend-HeatmapList-method          html  
    column_dend-dispatch                    html  
    column_order-Heatmap-method             html  
    column_order-HeatmapList-method         html  
    column_order-dispatch                   html  
    component_height-Heatmap-method         html  
    component_height-HeatmapList-method     html  
    component_height-dispatch               html  
    component_width-Heatmap-method          html  
    component_width-HeatmapList-method      html  
    component_width-dispatch                html  
    decorate_annotation                     html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/decorate_annotation.rd:22: missing file link 'seekViewport'
    decorate_column_dend                    html  
    decorate_column_names                   html  
    decorate_column_title                   html  
    decorate_dend                           html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/decorate_dend.rd:23: missing file link 'seekViewport'
    decorate_dimnames                       html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/decorate_dimnames.rd:23: missing file link 'seekViewport'
    decorate_heatmap_body                   html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/decorate_heatmap_body.rd:22: missing file link 'seekViewport'
    decorate_row_dend                       html  
    decorate_row_names                      html  
    decorate_row_title                      html  
    decorate_title                          html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/decorate_title.rd:23: missing file link 'seekViewport'
    densityHeatmap                          html  
    dist2                                   html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/dist2.rd:16: missing file link 'as.dist'
    draw-Heatmap-method                     html  
    draw-HeatmapAnnotation-method           html  
    draw-HeatmapList-method                 html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/draw-HeatmapList-method.rd:43: missing file link 'grob'
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/draw-HeatmapList-method.rd:46: missing file link 'grob'
    draw-SingleAnnotation-method            html  
    draw-dispatch                           html  
    draw_annotation-Heatmap-method          html  
    draw_annotation_legend-HeatmapList-method
                                            html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/draw_annotation_legend-HeatmapList-method.rd:16: missing file link 'grob'
    draw_dend-Heatmap-method                html  
    draw_dimnames-Heatmap-method            html  
    draw_heatmap_body-Heatmap-method        html  
    draw_heatmap_legend-HeatmapList-method
                                            html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/draw_heatmap_legend-HeatmapList-method.rd:16: missing file link 'grob'
    draw_heatmap_list-HeatmapList-method    html  
    draw_title-Heatmap-method               html  
    draw_title-HeatmapList-method           html  
    draw_title-dispatch                     html  
    enhanced_basicplot                      html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/enhanced_basicplot.rd:32: missing file link 'grob'
    get_color_mapping_list-HeatmapAnnotation-method
                                            html  
    get_color_mapping_param_list-HeatmapAnnotation-method
                                            html  
    grid.dendrogram                         html  
    heatmap_legend_size-HeatmapList-method
                                            html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/heatmap_legend_size-HeatmapList-method.rd:16: missing file link 'grob'
    ht_global_opt                           html  
    is_abs_unit                             html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/is_abs_unit.rd:19: missing file link 'grob'
    make_column_cluster-Heatmap-method      html  
    make_layout-Heatmap-method              html  
    make_layout-HeatmapList-method          html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/make_layout-HeatmapList-method.rd:39: missing file link 'grob'
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/make_layout-HeatmapList-method.rd:42: missing file link 'grob'
    make_layout-dispatch                    html  
    make_row_cluster-Heatmap-method         html  
    map_to_colors-ColorMapping-method       html  
    max_text_height                         html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/max_text_height.rd:15: missing file link 'textGrob'
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/max_text_height.rd:19: missing file link 'textGrob'
    max_text_width                          html  
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/max_text_width.rd:15: missing file link 'textGrob'
Rd warning: /tmp/RtmpfBxcyP/R.INSTALL21c45a959eb/ComplexHeatmap/man/max_text_width.rd:19: missing file link 'textGrob'
    oncoPrint                               html  
    plotDataFrame                           html  
    prepare-Heatmap-method                  html  
    rowAnnotation                           html  
    row_anno_barplot                        html  
    row_anno_boxplot                        html  
    row_anno_density                        html  
    row_anno_histogram                      html  
    row_anno_link                           html  
    row_anno_points                         html  
    row_anno_text                           html  
    row_dend-Heatmap-method                 html  
    row_dend-HeatmapList-method             html  
    row_dend-dispatch                       html  
    row_order-Heatmap-method                html  
    row_order-HeatmapList-method            html  
    row_order-dispatch                      html  
    selectArea                              html  
    set_component_height-Heatmap-method     html  
    show-ColorMapping-method                html  
    show-Heatmap-method                     html  
    show-HeatmapAnnotation-method           html  
    show-HeatmapList-method                 html  
    show-SingleAnnotation-method            html  
    show-dispatch                           html  
    unify_mat_list                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ComplexHeatmap)
Making 'packages.html' ... done

Created & Maintained by Osamu Ogasawara (osamu.ogasawara@gmail.com) and IMSBIO