README.md

In klovens/pineplot: Visualization of stacked symmetric matrices

pineplot

The pineplot package can be used to generate pine plots, which are stacked triangular heat maps that are generated using the visualization capabilities of ggplot2 and rotation from grid. Visualizing symmetric matrices in this way has the following benefits:

• Removes redundancy by removing half of the symmetric heat map
• Allows for visualizing more heatmaps in the same page, as it saves space
• Increases the margin space to allow for more annotation around axes
• Since each heat map is a ggplot2 object, the heatmaps can be easily manipulated after creation before construction of a pine plot

The paper will be available soon.

Brain Tissue | Liver Tissue | Kidney Tissue :-------------------------:|:-------------------------:|:-------------------------: | |

Getting Started

The R package devtools can be used to install this package. If you do not have devtools, it can be installed and loaded using the following commands.

install.packages("devtools")
library(devtools)

Next, install pineplot and load the package.

install_github("klovens/pineplot", build_vignettes =TRUE)
library(pineplot)

Examples and code demonstrating some of the different uses for pineplot are available in the vignettes.

vignette("pineplot")
vignette("cleveland_heart_disease")
vignette("liver")

Prerequisites

This package requires that ggplot2 (>= 3.0.0), grid, gridExtra (>= 2.3), reshape2 (>= 1.4.3), and gtable are installed. We also suggest knitr, magick, rmarkdown, and testthat (>= 2.1.0) in order to run all examples and tests.

Authors

• Katie Ovens - Initial work
• Daniel Hogan - Initial work
• Farhad Maleki - Initial work

klovens/pineplot documentation built on Nov. 4, 2019, 3:53 p.m.