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Merged
TuomasBorman merged 5 commits into from
Aug 10, 2026
Merged

plotHeatmap #231

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b66724f
Add plotHeatmap
TuomasBorman Aug 7, 2026
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TuomasBorman Aug 7, 2026
5218a52
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TuomasBorman Aug 9, 2026
e7db195
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TuomasBorman Aug 9, 2026
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TuomasBorman Aug 10, 2026
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2 changes: 1 addition & 1 deletion DESCRIPTION
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Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
Package: miaViz
Title: Microbiome Analysis Plotting and Visualization
Version: 1.21.3
Version: 1.21.4
Authors@R:
c(person(given = "Tuomas", family = "Borman", role = c("aut", "cre"),
email = "tuomas.v.borman@utu.fi",
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5 changes: 5 additions & 0 deletions NAMESPACE
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Expand Up @@ -9,6 +9,7 @@ export(plotColTile)
export(plotDMNFit)
export(plotFeaturePrevalence)
export(plotForest)
export(plotHeatmap)
export(plotHistogram)
export(plotJointRPCA)
export(plotLoadings)
Expand Down Expand Up @@ -40,6 +41,7 @@ exportMethods(plotColTree)
exportMethods(plotDMNFit)
exportMethods(plotFeaturePrevalence)
exportMethods(plotForest)
exportMethods(plotHeatmap)
exportMethods(plotHistogram)
exportMethods(plotJointRPCA)
exportMethods(plotLoadings)
Expand Down Expand Up @@ -122,8 +124,10 @@ importFrom(ggplot2,annotate)
importFrom(ggplot2,coord_cartesian)
importFrom(ggplot2,coord_flip)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_text)
importFrom(ggplot2,expansion)
importFrom(ggplot2,facet_grid)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_bar)
importFrom(ggplot2,geom_errorbar)
Expand Down Expand Up @@ -152,6 +156,7 @@ importFrom(ggplot2,scale_y_discrete)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_classic)
importFrom(ggplot2,theme_minimal)
importFrom(ggrepel,geom_label_repel)
importFrom(ggrepel,geom_text_repel)
importFrom(ggtree,geom_cladelab)
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1 change: 1 addition & 0 deletions NEWS
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Expand Up @@ -54,3 +54,4 @@ Changes in version 1.19.x

Changes in version 1.21.x
+ Added plotOrdination and plotJointRPCA (2026-08-04)
+ Added plotHeatmap (2026-08-10)
5 changes: 5 additions & 0 deletions R/AllGenerics.R
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@@ -1,18 +1,18 @@
# All generic methods are listed here

#' @rdname getNeatOrder
setGeneric("getNeatOrder", signature = c("x"),

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function(x, centering = "mean", ...)

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standardGeneric("getNeatOrder"))

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#' @rdname plotAbundance
setGeneric("plotAbundance", signature = c("x"), function(x, ...)

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standardGeneric("plotAbundance"))

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#' @rdname plotAbundanceDensity
#' @export
setGeneric("plotAbundanceDensity", signature = c("x"), function(x, ...)

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standardGeneric("plotAbundanceDensity"))

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#' @rdname plotCCA
#' @aliases plotRDA
Expand Down Expand Up @@ -166,3 +166,8 @@
#' @export
setGeneric("plotJointRPCA", signature = c("x"), function(x, ...)
standardGeneric("plotJointRPCA"))

#' @rdname plotHeatmap
#' @export
setGeneric("plotHeatmap", signature = c("x"), function(x, ...)
standardGeneric("plotHeatmap"))
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