liminal

liminal is an R package for constructing interactive visualisations
designed for exploratory high-dimensional data analysis. It’s main
purpose is to combine tours with (non-linear) dimension reduction
algorithms to provide a more holistic view of the geometry and topology
of a dataset. These are designed for data analysts first, so they render
either inside the RStudio Viewer pane or from a web-browser using
shiny.

There are two main functions for generating tour interfaces:

• The basic tour animation via limn_tour()
• Linking tours to another view limn_tour_link()

The goal of liminal is to provide complementary visualisations for
use with understanding embedding algorithms such as tSNE. It has been
shown that in order to produce
an ‘effective’ embedding one may have to play with hyperparamters and
various settings for these algorithms. liminal allows you to see how
different parameterisations warps the underlying high-dimensional space.

See the liminal
vignette for
details of package usage and our arXiv
preprint for a complete discussion on
how to apply liminal to real data analysis workflows like
clustering.

Quick Start

The release version of liminal is available on CRAN:

install.packages("liminal")

The development version of liminal can be installed as follows:

# install.packages("remotes")
remotes::install_github("sa-lee/liminal")

You can generate a tour view that will load in the Rstudio Viewer pane:

library(liminal)
limn_tour(fake_trees, dim1:dim10)

The interface provides instructions on how to use it, click on the help
button to get started!