add_worms_taxonomy      Add WoRMS taxonomy hierarchy to AphiaIDs or
                        scientific names
assign_phytoplankton_group
                        Assign phytoplankton group to scientific names
calc_zooplankton_biomass
                        Calculate zooplankton biomass from dry weight
                        and abundance
calc_zooplankton_dry_weight
                        Calculate zooplankton dry weight from mean
                        length
check_codes             Check matches of reported codes in SMHI's SHARK
                        codelist
check_datatype          Validate SHARK system fields in a data frame
check_depth             Validate depth values against bathymetry and
                        logical constraints
check_fields            Validate SHARK data fields for a given datatype
check_logical_parameter
                        General checker for parameter-specific logical
                        rules
check_nominal_station   Check if stations are reported as nominal
                        positions
check_onland            Check whether points are located on land
check_outliers          General outlier check function for SHARK data
check_parameter_rules   Check parameter values against logical rules
check_setup             Download and set up SHARK4R support files
check_station_distance
                        Check station distances against SMHI station
                        list
check_value_logical     Identify non-numeric or non-logical values in
                        measurement data
check_zero_positions    Identify samples with zero-valued station
                        coordinates
check_zero_value        Identify records with zero-valued measurement
                        data
clean_shark4r_cache     Clean SHARK4R cache by file age and session
construct_dyntaxa_table
                        Construct a hierarchical taxonomy table from
                        Dyntaxa
convert_ddmm_to_dd      Convert coordinates from DDMM format to decimal
                        degrees
create_pie_map          Pie chart map with displacement and leader
                        lines
find_required_fields    Find required fields in a SHARK delivery
                        template
get_delivery_template   Get a delivery template for a SHARK datatype
get_dyntaxa_dwca        Download and read Darwin Core Archive files
                        from Dyntaxa
get_dyntaxa_parent_ids
                        Get parent taxon IDs for specified taxon IDs
                        from Dyntaxa
get_dyntaxa_records     Get taxonomic information from Dyntaxa for
                        specified taxon IDs
get_hab_list            Download the IOC-UNESCO Taxonomic Reference
                        List of Harmful Microalgae
get_nomp_list           Get the latest NOMP biovolume Excel list
get_nua_external_links
                        Retrieve external links or facts for taxa from
                        Nordic Microalgae
get_nua_harmfulness     Retrieve harmfulness for taxa from Nordic
                        Microalgae
get_nua_image_labeling_links
                        Retrieve image labeling media links from Nordic
                        Microalgae
get_nua_image_labeling_metadata
                        Retrieve image labeling metadata from Nordic
                        Microalgae
get_nua_media_links     Retrieve and extract media URLs from Nordic
                        Microalgae
get_nua_media_metadata
                        Retrieve media metadata from Nordic Microalgae
get_nua_taxa            Retrieve taxa information from Nordic
                        Microalgae
get_peg_list            Get the latest EG-Phyto/PEG biovolume Excel
                        list
get_shark_codes         Get SHARK codelist from SMHI
get_shark_data          Retrieve tabular data from SHARK
get_shark_datasets      Download SHARK dataset zip archives
get_shark_options       Retrieve available search options from SHARK
get_shark_statistics    Summarize numeric SHARK parameters with ranges
                        and outlier thresholds
get_shark_table_counts
                        Retrieve SHARK data table row counts
get_toxin_list          Retrieve marine biotoxin data from IOC-UNESCO
                        Toxins Database
get_worms_classification
                        Retrieve hierarchical classification from WoRMS
get_worms_records       Retrieve WoRMS records
get_worms_taxonomy_tree
                        Retrieve hierarchical taxonomy data from WoRMS
is_in_dyntaxa           Check if taxon names exist in Dyntaxa
load_shark4r_fields     Load SHARK4R fields from GitHub
load_shark4r_stats      Load SHARK4R statistics from GitHub
lookup_xy               Lookup spatial information for geographic
                        points
match_algaebase_genus   Search AlgaeBase for information about a genus
                        of algae
match_algaebase_species
                        Search AlgaeBase for information about a
                        species of algae
match_algaebase_taxa    Search AlgaeBase for taxonomic information
match_dyntaxa_taxa      Match Dyntaxa taxon names
match_station           Match station names against SMHI station list
match_worms_taxa        Retrieve WoRMS records by taxonomic names with
                        retry logic
parse_scientific_names
                        Parse scientific names into genus and species
                        components.
plot_map_leaflet        Create an interactive Leaflet map of sampling
                        stations
positions_are_near_land
                        Determine if positions are near land
read_ptbx               Read a Plankton Toolbox export file
read_shark              Read SHARK export files (tab- or
                        semicolon-delimited, plain text or zipped)
read_shark_deliv        Read SHARK Excel delivery files (.xls or .xlsx)
run_qc_app              Launch the SHARK4R Bio-QC Tool
scatterplot             Scatterplot with optional horizontal threshold
                        lines
translate_shark_datatype
                        Translate SHARK4R datatype names
update_dyntaxa_taxonomy
                        Update SHARK taxonomy records using Dyntaxa
which_basin             Determine if points are in a specified sea
                        basin
