Generate a heatmap for gene expression data from a `SummarizedExperiment` object, with optional sample annotations and custom styling.
Usage
plot_exp_heatmap(
expData,
genes,
annotations = NA,
assay = "norm",
gene_name = "gene_name",
annotation_prop = 0.1,
annotation_colors = NULL,
fname = NULL,
fwidth = 7,
fheight = 5,
...
)Arguments
- expData
A `SummarizedExperiment` object containing gene expression data.
- genes
A character vector of gene identifiers (e.g., `gene_name`) to include in the heatmap.
- annotations
A character vector of column names in the `colData` of `expData` to use for sample annotations in the heatmap. Default is `NA` (no annotations).
- assay
A character string specifying the assay to use from `expData`. Default is `"norm"`.
- gene_name
A character string specifying the gene identifier column in `rowData(expData)`. Default is `"gene_name"`.
- annotation_prop
A numeric value specifying the proportion of the heatmap height/width allocated to the annotation tracks. Default is `0.1`.
- annotation_colors
A named list of colors for the annotation tracks. Default is `NULL` (automatic coloring).
- fname
A character string specifying the file name for saving the heatmap. Default is `NULL` (no file saved).
- fwidth
Numeric, the width of the saved plot in inches. Default is `7`.
- fheight
Numeric, the height of the saved plot in inches. Default is `5`.
- ...
Additional arguments passed to the underlying heatmap plotting functions.