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ggalign 0.0.4
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@Yunuuuu Yunuuuu released this 12 Oct 13:43
v0.0.4
3ccf45e

  • layout_heatmap()/ggheatmap() arguments width/height have been renamed .width/.height to helps avoid conflicts with arguments from geom_tile().

  • the nestet alignpatches theme by default will inherit from the parent alignpatches

  • new layout_title() function, now layout_annotation() only control the layout theme

  • add ggrastr::rasterize method for both ggheatmap() and ggstack()

  • set_context argument in align_dendro() now depends on plot_dendrogram by default

  • align_dendro() gain a new argument reorder_dendrogram to control whether to reorder the generated dendrogram based on the mean values.

  • align_reorder() now splitted into two function align_order() and align_reorder()

  • dendrogram_data() gain a new argument reorder_branches to control whether to reorder the input leaf_braches based on the tree.

  • align_dendro() gain new argument merge_dendrogram to control whether the dendrograms in multiple groups should be merged

  • dendrogram height axis will be automatically reversed in bottom and left annotation stack

  • heatmap fill color scale now default use scale_fill_gradient2(low = "blue", high = "red") for continuous values.

  • Coord is used to set limits instead of Scale

  • all free_* arguments now accept the same argument of the corresponding free_* functions.

  • new theme_ggalign() function for the default theme of ggalign package

  • export option ggalign.default_theme allow user to change the global default theme

  • new free_guide() function, to override the layout guides argument for single plot

  • geom_draw() now utilize patch() function to convert objects into grob

  • internal changes: all vectors have been operated with vctrs package

  • stack_layout(): gain sizes argument to control the relative sizes of the stack

  • align_()*: now order argument only control the plot area.

  • align_reorder() now can accept an ordering character names.

  • export order2() function

  • align_reorder(): fun argument has been renamed to order argument, and it can now accept the ordering integer index directly

  • fun in align_reorder() now can return any statistics which can be handled by order2()

  • fix ggheatmap() order not work when put in a stack layout

  • method in hclust2() can now return any objects which can be coerced into hclust, or you can provide such object directly in method.

  • hclust2() now can accept distance = NULL

  • hmanno(), stack_active(), and align_*() functions gain a new argument theme to control the theme for the plot.

  • new layout_annotation() and layout_theme() to modify the layout components

  • borders argument in free_space() has been renamed to spaces

  • {tibble} is now removed from the dependency

  • align_plots() now can accept gList, function, recordedplot, trellis, pheatmap, Heatmap, HeatmapAnnotation, and HeatmapList, we have added alignpatch method for these objects.

  • add patch method for gList, function, recordedplot, trellis, pheatmap, Heatmap, HeatmapAnnotation, and HeatmapList

  • fix a bug in wrap() function where duplicated names in gtable cause some grobs missing

  • new free_vp() function to customize the viewport when aligning.

  • StackLayout and HeatmapLayout methods have been collapsed into one method for Layout class

  • New Patch class, now we can extend the alignment process of any object and customize the building process with ggproto.

  • fix missing variable labs in the free_space method of PatchAlignpatches

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