# 3D Volcano Plots and Polar Plots for Three-Class Data

## Documentation for package ‘volcano3D’ version 2.0.9

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

add_animation | Add mode bar button to rotate the plot
boxplot_trio | Boxplot to compare groups
calc_pvals | Calculate one-way test and pairwise tests
calc_stats_2x3 | Calculate p-values for 2x3-way analysis
deseq_2x3 | 2 x 3 factor DESeq2 analysis
deseq_2x3_polar | Convert 2x3 design DESeq2 objects to a volcano3d object
deseq_polar | Convert DESeq2 objects to a volcano3d object
forest_ggplot | Forest plot individual gene from 2x3 factor analysis
forest_plot | Forest plot individual gene from 2x3 factor analysis
forest_plotly | Forest plot individual gene from 2x3 factor analysis
grid-class | An S4 class to define the polar grid coordinates system.
polar_coords | Coordinates for Three Way Polar Plot
polar_coords_2x3 | Coordinates for three way polar plot from 2x3 factor analysis
polar_grid | Grid required for 3D volcano plot and 2D radial plots
radial_ggplot | 'Ggplot' for Three Way Polar Plot
radial_plotly | Three-way radial comparison Polar Plot (using plotly)
show_grid | Plots grid objects for inspection using plotly
significance_subset | Extract a subset population
syn_example_meta | PEAC synovial sample data
syn_example_rld | PEAC synovial gene expression data
volc3d-class | An S4 class to define the polar coordinates.
volcano3D | Three-Dimensional Volcano Plot
voom_polar | Convert RNA-Seq count data to a volcano3d object using 'limma voom'