HeatmapExpPlotly: HeatmapExpPlotly

In inDAGO: A GUI for Dual and Bulk RNA-Sequencing Analysis

HeatmapExpPlotly

Description

Create an interactive heatmap of top variable genes using Heatmaply.

Usage

HeatmapExpPlotly(x, ColorPanel, scale, cluster, show_names, NumGenes)

Arguments

x	Numeric matrix of log-CPM values (genes × samples), e.g., from edgeR::cpm().
ColorPanel	Character. Name of a continuous palette from the paletteer package.
scale	Character. Scaling mode: "row", "column", or "none".
cluster	Character or logical. Clustering option for dendrogram: "both", "row", "column", or "none".
show_names	Character. One of "both", "row", "column", or "none" to display row/column labels.
NumGenes	Integer. Number of top-variance genes to include in the heatmap.

Details

This function selects the highest-variance genes from a log-CPM matrix, transposes the data, and renders an interactive heatmap via "heatmaply", using "pheatmap" call.

1. Compute per-gene variance and select the top NumGenes.

2. Transpose the subsetted matrix so samples are rows.

3. Generate a temporary static heatmap with pheatmap to extract dendrograms.

4. Render an interactive heatmap with heatmaply::heatmaply().

Value

A Plotly object (heatmaply) representing the interactive heatmap.

inDAGO documentation built on Aug. 8, 2025, 7:47 p.m.