Package index • planktonr

Load Data Functions to access data from the AODN.
`pr_get_CPRData()`	Import CPR Data
`pr_get_CPRTrips()`	Get CPR trips
`pr_get_CSChem()`	Load microbial data
`pr_get_CTI()`	Get CTI for sample
`pr_get_Coeffs()`	Get coefficients from linear model
`pr_get_DataLocs()`	Functions for matching location data to satellite products
`pr_get_DayNight()`	Get data for plots of species abundance by day and night using CPR data
`pr_get_EOVs()`	Get Essential Ocean Variables
`pr_get_FreqMap()`	Get data for frequency map plots
`pr_get_FuncGroups()`	Get functional group data
`pr_get_Indices()`	Access data for timeseries and climatology plots
`pr_get_LFData()`	Get Larval Fish Sample Data
`pr_get_LTnuts()`	Get NRS long term nutrient timeseries data
`pr_get_NRSCTD()`	Load NRS CTD data
`pr_get_NRSChemistry()`	Load chemistry data
`pr_get_NRSData()`	Import NRS Data
`pr_get_NRSEnvContour()`	Data for environmental contour plots
`pr_get_NRSMicro()`	Load microbial data
`pr_get_NRSPico()`	Load picophytoplankton data
`pr_get_NRSPigments()`	Get pigments data
`pr_get_NRSStation()`	Import NRS Station information
`pr_get_NRSTSS()`	Load Total Suspended Solids (TSS) data
`pr_get_NRSTrips()`	Import NRS BGC information
`pr_get_NonTaxaColumns()`	Return columns that are not taxonomic
`pr_get_PCIData()`	Data for PCI plot from CPR data
`pr_get_PlanktonInfo()`	Load plankton information table with sizes etc.
`pr_get_PolicyInfo()`	Get policy information
`pr_get_ProgressMapData()`	Data for IMOS progress map
`pr_get_Raw()`	Download Raw Data from IMOS
`pr_get_STI()`	Get STI kernel density for each species
`pr_get_STIdata()`	Get data for STI plots of species abundance
`pr_get_SatData()`	Get data for satellite data
`pr_get_Site()`	Get location of raw plankton data
`pr_get_SpeciesInfo()`	Get species information table for Phytoplankton and Zooplankton
`pr_get_TaxaAccum()`	Get taxa accumulation data for plotting
`pr_get_s3()`	Download Raw Data from IMOS
`pr_get_s3site()`	Get location of s3 plankton data
Plotting Functions for plotting.
`pr_plot_CPRmap()`	Title Sidebar panel plot of selected CPR bioregions
`pr_plot_Climatology()`	Plot single climatology
`pr_plot_DayNight()`	Plot of relative day and night abundances
`pr_plot_EOVs()`	Essential Ocean Variables plot
`pr_plot_Enviro()`	Combined timeseries and climatology plots for environmental variables
`pr_plot_FreqMap()`	Frequency plot of the selected species
`pr_plot_Gantt()`	Plot Gantt Chart showing plankton sampling status
`pr_plot_NRSEnvContour()`	Contour plots for depth stratified environmental data
`pr_plot_NRSmap()`	Sidebar panel plot of selected NRS stations
`pr_plot_PCImap()`	PCI plot for CPR data
`pr_plot_PieFG()`	Pie plots of functional groups for data
`pr_plot_ProgressMap()`	IMOS progress plot
`pr_plot_STI()`	Plot of STI kernel density for species
`pr_plot_TaxaAccum()`	Taxa Accumulation Curve
`pr_plot_TimeSeries()`	Plot basic timeseries
`pr_plot_Trends()`	Plot temporal Trends in plankton data
`pr_plot_Voyagemap()`	Sidebar panel plot of voyages
`pr_plot_box()`	Simple boxplot function using common NRS colouring
`pr_plot_latitude()`	Plot for latitudinal data
`pr_plot_scatter()`	Simple function to scatter 2 data columns using common NRS colouring
`pr_plot_tsclimate()`	Combined timeseries and climatology plots
`pr_plot_tsfg()`	Time series plot of functional groups
Utilities Helper functions.
`pr_add_Bioregions()`	Add bioregions data to existing df
`pr_add_Carbon()`	Add Carbon concentration to phytoplankton dataframe
`pr_add_StationCode()`	Add NRS StationCode to data
`pr_add_StationName()`	Add NRS StationName to data
`pr_apply_Flags()`	Remove flagged data in df
`pr_apply_Time()`	Add Month & year columns to df
`pr_filter_NRSStations()`	Filter dataframe on `StationCode` to return only NRS stations
`pr_filter_Species()`	Remove incorrect species names from dataframe
`pr_filter_data()`	Filter data for plotting functions
`pr_harmonic()`	For use in models to create a circular predictor
`pr_make_climatology()`	To produce the climatology for plotting
`pr_match_Altimetry()`	Match data for altimetry
`pr_match_GHRSST()`	Match locations to GHRSST
`pr_match_MODIS()`	Match data for MODIS
`pr_relabel()`	Format a parameter string for plotting
`pr_remove_outliers()`	Removing outliers from data
`pr_rename()`	Rename variables within dataframe
`pr_reorder()`	Order the Station or region in the df by latitude for consistent plotting
`pr_title()`	Helper function to reformat Titles
`theme_pr()`	Define theme_pr() function

Reference

Load Data

Plotting

Utilities