Description of files in DATA_S1

Light_dark_Western_Australia: R project. Open this first to begin project with automatic working directory set.

data/
	germination_data.csv/
	
	Data from the germination experiment conducted at Kings Park, Perth, using seeds retreived from WPNR
	Each row represents a petri dish

	species: Species identity
	plot: plot that seed bags were retrieved from in the field
	species.plot: unique identifier for each seed bag at the plot and species level
	light/dark: what treatment was the petri dish assigned to i.e. light or dark
	plate: unique value for each petri dish
	date plated: date of the dish being wetted
	# seeds: total number of seeds placed in each petri dish
	week 1-5: cumulative number of germinants in each week after date plated
	cotyledons only: number of seeds from which only cotyledons emerged (not included in week 1-5)
	emerged-inviable: number of seeds which had an unhealthy germinant emerge (not included in week 1-5)

	plot_level_environment.csv/

	Plot level environmental data from the field in WPNR
	
	plot: plot that seed bags were retrieved from in the field
	canopy.cover.s: canopy cover percentage analysed from digital photographs in ImageJ
	canopy.cover.s.north: canopy cover percentage analysed from northern half of same digital photographs as canopy.cover.s in ImageJ
	cwd: was coarse woody debris present (y) or not (n)
	seed.bag.litter: was litter present on top of seed bag, yes (y) or no (n)
	
	
	seed_fill.csv/
	
	Seed fill of seeds retrieved from WPNR using X-ray analysis at Kings Park, Perth

	species: species identity
	plot plot that seed bags were retrieved from in the field
	no. seeds: how many seeds were analysed using X-ray analyses
	no.seeds.visible: how many seeds were visible in X-ray images
	no.seeds.unfilled: how many seeds out of those which were visible were considered to be unfilled

	seed_mass_dried.csv/

	Seed mass of seeds from bulk seed collection from the same year as the seeds which were buried
	
	species: species identity
	mass_mg: total mass in milligrams of seeds
	num_seeds: number of seeds used to measure mass_mg

code.R

Code used to clean data, conduct analyses and visualise results.

output

Folder which collects results