This repository contains R scripts for the data analyses and visualisations of my PhD results. The data are of diatom species assemblages from Lake Ioannina and Lake Ohrid. The data were generated by manually counting diatom valves, which were preserved in lake sediment cores, under a microscope. They span a time period roughly equivalent to Marine Isotope Stages 7–9 (approximately 320,000 to 190,000 years ago).
ioannina_read_data.R – reads in the data from an Excel spreadsheet
ioannina_zonation.R – constrained incremental sum of squares (CONISS) cluster analysis to group similar adjacent samples together to form diatom assemblage zones
ioannina_ordination.R – dimensionality reduction of the multivariate data to pick out the main trends
ioannina_stratigraphic_diagram.R – plots the stratigraphic diagram
Zonation of the Lake Ioannina diatom data
Ordination of the Lake Ioannina MIS 7–9 diatom data
Numerical analyses of the Lake Ohrid MIS 7 diatom data - TODO: add Ohrid data and scripts to repo, then review markdown file and publish