CorrPlotHeatmaply: CorrPlotHeatmaply

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

CorrPlotHeatmaply

Description

Create an interactive correlation heatmap of top variable genes using Heatmaply.

Usage

CorrPlotHeatmaply(x, Color, type, cluster, scale, show_names, NumGenes)

Arguments

x	Numeric matrix of log-CPM values (genes × samples), e.g., from "edgeR::cpm()".
Color	Character. Name of a continuous palette from the "paletteer" package.
type	Character. Correlation method passed to "Hmisc::rcorr()": "pearson", "spearman", or "kendall".
cluster	Character or logical. Clustering option for dendrogram: "both", "row", "column", or "none".
scale	Character. Scaling mode for the heatmap: "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 correlation.

Details

This function selects the highest-variance genes from a log-CPM matrix, computes pairwise correlation coefficients (and p-values) with "Hmisc::rcorr()", and renders an interactive correlation heatmap via "heatmaply::heatmaply_cor()", using clustering and scaling options derived from "pheatmap" call.

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

2. Subset the matrix and compute correlations (and p-values) via "Hmisc::rcorr()".

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

4. Render an interactive heatmap with "heatmaply::heatmaply_cor()", passing in color, clustering, scaling, tick-label visibility, and point size based on -log10(p-value).

Value

A Plotly object (heatmaply) representing the interactive correlation heatmap.

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