heatmapSig: Heatmap of deltadeltaCt values from qPCR data.

In HTqPCR: Automated analysis of high-throughput qPCR data

Description

Heatmap and clustering of deltadeltaCt values from different sample comparisons using qPCR data.

Usage

heatmapSig(qDE, comparison = "all", col, zero.center = TRUE, mar, dist = "pearson", ...)

Arguments

qDE	data.frame or list, as created by ttestCtData or limmaCtData.
comparison	integers or the names of the comparisons to include in the plot. Defaults to all results in the qDE data, but a minimum of two is required.
col	colour scheme to use for the plot.
zero.center	logical, should the colour scale be centered around 0.
mar	vector of length two, the bottom and right side margins mof the heatmap.
dist	character string, either "pearson" (default) or "euclidean" indicating what type of distance is used for the clustering.
...	further arguments passed to heatmap.2.

Details

This function can be useful if multiple conditions are compared, for detecting features with similar behaviour in comparisons, and look at the general level of up and down regulation.

Value

A plot if produced in the current graphics device.

Author(s)

Heidi Dvinge

See Also

heatmap.2 for modifying the plot, and ttestCtData or limmaCtData for generating the data used for the plotting.

HTqPCR documentation built on Nov. 8, 2020, 6:51 p.m.