All functions

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_plot() forest_plotly() forest_ggplot()

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'