CredibleViz: Visualize Uncertainty in Projection

In andyhoegh/UncertainOrd: Accounts for Uncertainty in Model-Based Unconstrained Ordination

Description

This function simulates multivariate Poisson count data from a latent factor model.

Usage

CredibleViz(coord1, coord2, type = "points", items = NULL)

Arguments

coord1	- mcmc object with first coordinate of projection
coord2	- mcmc object with second coordinate of projection
type	- plot type, options are 'points', 'circles', 'scatter', 'density
items	- items to display uncertainty, only works for circles, density, or scatter

Value

plot.obj - ggplot object

Examples

data(spider, package = 'mvabund')
spider.matrix <- matrix(as.numeric(spider$abund > 0), nrow = 28, ncol = 12)
ord <- ordinate_probit(500, spider.matrix)
CredibleViz(ord$z.samples[,,1], ord$z.samples[,,2], type = 'points', items = c(1,10,16))
CredibleViz(ord$z.samples[,,1], ord$z.samples[,,2], type = 'density', items = c(1,10,16))

andyhoegh/UncertainOrd documentation built on Aug. 9, 2019, 4:33 p.m.