geneBinHeatmap | R Documentation |
A wrapper around 'ComplexHeatmap'.
geneBinHeatmap( se, gene, what = NULL, anno_rows = c("type", "logWidth", "meanLogDensity", "log10PValue", "geneAmbiguous"), anno_columns = c(), anno_colors = list(), removeAmbiguous = FALSE, merge_legends = TRUE, cluster_columns = FALSE, minDensityRatio = 0.1, left_annotation = NULL, top_annotation = NULL, ... )
se |
A bin-wise SummarizedExperiment as produced by
|
gene |
The gene of interest |
what |
Type of values (i.e. assay) to plot |
anno_rows |
Row annotation columns (i.e. columns of 'rowData(se)') to plot |
anno_columns |
Column annotation columns (i.e. columns of 'colData(se)') to plot |
anno_colors |
Annotation colors, as a list named with the row/column
annotations, see ' |
removeAmbiguous |
Logical; whether to remove bins that are gene-ambiguous (i.e. overlap multiple genes). |
merge_legends |
Logical; whether to merge legends. This effectively calls 'draw(..., merge_legends=TRUE)' around the heatmap. |
cluster_columns |
Logical; whether to cluster columns (passed to
|
minDensityRatio |
Minimum ratio of read density (with respect to the gene's average) for a bin to be plotted. |
left_annotation |
Passed to |
top_annotation |
Passed to |
... |
Passed to 'ComplexHeatmap' (see
|
A Heatmap
data(example_bin_se) se <- diffSpliceWrapper(example_bin_se, ~condition) geneBinHeatmap(se, "Jund")
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