R/data.R
In casaultb/azmpdata: A data package to share derived metrics from AZMP research documents
# data set documentation
#' Zooplankton seasonal section data
#'
#' A dataframe containing seasonal section zooplankton data.
#'
#'
#' @format A dataframe with 152 observations of 6 variables:
#'
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#'
#' \item{Calanus_finmarchicus_log10}{Abundance of Calanus finmarchicus with a log10 transform}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton sampled}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Seasonal}
#' \item{regional_scale}{Section}
#' \item{category}{Zooplankton, biological, biochemical}
#' }
#'
#'
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
"Zooplankton_Seasonal_Sections"
#' Zooplankton seasonal broadscale data
#'
#' A dataframe containing seasonal broadscale zooplankton data.
#'
#'
#' @format A dataframe containing 40 observations of 6 variables:
#' \describe{
#' \item{region}{The region in which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#'
#'
#' \item{Calanus_finmarchicus_log10}{Abundance of Calanus finmarchicus with a log10 transform}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton sampled}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Seasonal}
#' \item{regional_scale}{Broadscale}
#' \item{category}{Zooplankton, biological, biochemical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
"Zooplankton_Seasonal_Broadscale"
#' Zooplankton Occupation Broadscale data
#'
#' A dataframe containing seasonal broadscale zooplankton data.
#'
#'
#' @format A dataframe containing 1177 obesrvations of 10 variables
#' \describe{
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#' \item{sample_id}{A unique identifier for each sample, sample id
#' appended by the cruise number to ensure uniqueness}
#'
#' \item{Calanus_finmarchicus_abundance}{Abundance of Calanus finmarchicus}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton sampled}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Broadscale}
#' \item{category}{Zooplankton, biological, biochemical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
"Zooplankton_Occupations_Broadscale"
#' Derived Occupation Station data
#'
#' Metrics derived from data collected at fixed station locations during individual occupations.
#'
#'
#'
#' @format A dataframe with 737 observations of 14 variables
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#' \item{nominal_depth}{The depth at which data was planned to be collected - sometime differs slightly from actual collection depth}
#'
#' \item{mixed_layer_depth}{The depth of the well mixed surface layer at fixed stations}
#' \item{density_gradient_0_50}{An index of stratification, measured as the density difference between 0 and 50 metres}
#' \item{euphotic_depth}{The depth of the euphotic zone measured at fixed stations}
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' \item{integrated_silicate_0_50}{Silicate concentrations integrated between 0 and 50 metres}
#' \item{integrated_silicate_50_150}{Silicate concentrations integrated between 50 and 150 metres}
#' \item{integrated_chlorophyll_0_100}{Chlorophyll concentrations integrated between 0 and 100 metres}
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, biochemical, physical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
#'
"Derived_Occupations_Stations"
#' Zooplankton Occupations Stations data
#'
#' Zooplankton data collected at fixed stations during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#'
#' \item{Acartia_abundance}{Abundance of acartia}
#' \item{Eurytemora_abundance}{Abundance of eurytemora}
#' \item{Temora_longicornis_abundance}{Abundance of temora longicornis }
#' \item{other_copepods}{Abundance of other copepods group}
#' \item{copepods}{Abundance of copepods group }
#' \item{non_copepods}{Abundance of non-copepods group }
#' \item{Arctic_Calanus_species}{Abundance of arctic calanus group }
#' \item{warm_offshore_copepods}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis) }
#' \item{warm_shelf_copepods}{Abundance of warm shelf copepods group (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{calanus_finmarchicus_abundance}{Abundance of calanus finmarchicus }
#' \item{calanus_hyperboreus_abundance}{Abundance of Calanus Hyperboreus}
#' \item{calanus_glacialis_abundance}{Abundance of Calanus Glacialis}
#' \item{pseudocalanus_abundance}{Abundance of pseudocalanus}
#' \item{metridia_longa_abundance}{Abundance of Metridia longa}
#' \item{metridia_lucens_abundance}{Abundance of Metridia lucens}
#' \item{metridia_spp_abundance}{Abundance of Metridia spp}
#' \item{microcalanus_spp_abundance}{Abundance of microcalanus}
#' \item{oithona_spp_abundance}{Abundance of Oithona spp}
#' \item{oithona_similis_abundance}{Abundance of Oithona similis}
#' \item{oithona_atlantica_abundance}{Abundance of Oithona atlantica}
#' \item{paracalanus_spp_abundance}{Abundance of paracalanus}
#' \item{centropages_typicus_abundance}{Abundance of Centropages typicus}
#' \item{centropages_spp_abundance}{Abundance of Centropages spp}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_meso_wet_weight}{Wet weight of meso zooplankton}
#' \item{zooplankton_macro_wet_weight}{Wet weight of macro zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton}
#' \item{calanus_abundance_stage_c1}{Stage seperated calanus abundance (stage c1)}
#' \item{calanus_abundance_stage_c2}{Stage seperated calanus abundance (stage c2)}
#' \item{calanus_abundance_stage_c3}{Stage seperated calanus abundance (stage c3)}
#' \item{calanus_abundance_stage_c4}{Stage seperated calanus abundance (stage c4)}
#' \item{calanus_abundance_stage_c5}{Stage seperated calanus abundance (stage c5)}
#' \item{calanus_abundance_stage_c6}{Stage seperated calanus abundance (stage c6)}
#'}
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, zooplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Occupations_Stations"
#' Phytoplankton Occupation Station data
#'
#' Phytoplankton data collected at fixed stations during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#'
#' \item{diatoms}{Abundance of diatoms group, using Fucoxanthin as a measurement proxy}
#' \item{dinflagellates}{Abundance of dinoflagellates group, using Peridinin as a measurement proxy}
#' \item{flagellates}{Abundance of flagellates group}
#' \item{ciliates}{Abundance of ciliates group}
#' \item{microzooplankton}{Abundance of microzooplankton group}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Phytoplankton_Occupations_Stations"
#' Discrete Occupation Station data
#'
#' Discrete data collected at fixed stations during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#' \item{nominal_depth}{The depth at which data was planned to be collected - sometime differs slightly from actual collection depth}
#'
#' \item{nitrate}{Discrete measurements of nitrate concentration in the water column at a range of depths }
#' \item{silicate}{Discrete measurements of silicate concentration in the water column at a range of depths }
#' \item{phosphate}{Discrete measurements of phosphate concentration in the water column at a range of depths }
#' \item{chlorophyll}{Discrete measurements of chlorophyll concentration in the water column at a range of depths }
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{sigmaTheta}{Discrete density measurements over a range of depths}
#'
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton, biochemical, physical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Discrete_Occupations_Stations"
#' Derived Monthly Station data
#'
#' Derived data products from fixed stations collected monthly.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#'
#'
#' \item{sea_surface_height}{Average of sea surface height at Yarmouth and Halifax NS}
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Monthly}
#' \item{regional_scale}{Station}
#' \item{category}{ physical}
#' }
#'
#' @details The data can be cited as follows:
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Derived_Monthly_Stations"
#' Derived Annual station data
#'
#' Derived data collected at fixed stations by year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{temperature_in_air}{Average air temperatures over annual scales at specific stations including Sable Island}
#' \item{denisty}{Discrete density measurements over a range of depths}
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{integrated_sea_temperature_0_50}{Averages of temperature measurements, integrated between 0 and 50 metres}
#' \item{integrated_salinity_0_50}{Averages of salinity measurements, integrated between 0 and 50 metres}
#' \item{integrated_sigmaTheta_0_50}{Averages of density measurements, integrated between 0 and 50 metres}
#' \item{temperature_0}{Averages for temperature at 0 metres at Prince 5 (P5) and Halifax 2 (HL2) stations}
#' \item{temperature_90}{Averages for temperature at 90 metres at Prince 5 (P5) and Halifax 2 (HL2) stations}
#' \item{sea_surface_temperature_from_moorings}{Averages of sea surface temperatures recorded by mooring at Halifax, NS and St. Andrews, NB}
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton, biochemical, physical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Derived_Annual_Stations"
#' Zooplankton Annual Stations data
#'
#' Zooplankton data collected at fixed stations by year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{calanus_finmarchicus_log10}{Abundance of calanus finmarchicus with
#' a log 10 transform }
#' \item{Acartia_log10}{Abundance of acartia with a log 10 transform }
#' \item{Eurytemora_log10}{Abundance of eurytemora with a log 10 transform }
#' \item{Temora_longicorns_log10}{Abundance of temora longicornis with a log 10 transform }
#' \item{other_copepods_log10}{Abundance of other copepods group with a log 10 transform }
#' \item{copepods_log10}{Abundance of copepods group with a log 10 transform }
#' \item{non_copepods_log10}{Abundance of non-copepods group with a log 10 transform }
#' \item{Arctic_Calanus_species_log10}{Abundance of arctic calanus group with a log 10 transform }
#' \item{warm_offshore_copepods_log10}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis) with a log 10 transform }
#' \item{warm_shelf_copepods_log10}{Abundance of warm shelf copepods group with a log 10 transform (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{calanus_hyperboreus_log10}{Abundance of calanus hyperboreus with a
#' log 10 transform }
#' \item{pseudocalanus_log10}{Abundance of pseudocalanus with a log 10 transform }
#' \item{metridia_longa_log10}{Abundance of metridia longa with a log 10 transform }
#' \item{metridia_lucens_log10}{Abundance of metridia lucens with a log 10 transform }
#' \item{metridia_spp_log10}{Abundance of metridia spp with a log 10 transform }
#' \item{microcalanus_spp_log10}{Abundance of microcalanus with a log 10 transform }
#' \item{oithona_spp_log10}{Abundance of oithona species with a log 10 transform }
#' \item{oithona_similis_log10}{Abundance of oithona similis with a log 10 transform }
#' \item{oithona_atlantica_log10}{Abundance of oithona atlantica with a log
#' 10 transform }
#' \item{paracalanus_spp_log10}{Abundance of paracalanus with a log 10 transform }
#' \item{centropages_typicus_log10}{Abundance of centropages typicus with a
#' log 10 transform }
#' \item{centropages_spp_log10}{Abundance of centropages species with a log
#' 10 transform }
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton from sampling}
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, zooplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Annual_Stations"
#' Phytoplankton Annual Station data
#'
#' Phytoplankton data collected at fixed stations by year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{diatoms_log10}{Abundance of diatoms with
#' a log 10 transform }
#' \item{dinoflagellates_log10}{Abundance of dinoflagellates with
#' a log 10 transform }
#' \item{flagellates_log10}{Abundance of flagellates with
#' a log 10 transform }
#' \item{ciliates_log10}{Abundance of ciliates with
#' a log 10 transform }
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Phytoplankton_Annual_Stations"
#' Derived Occupation Section data
#'
#' Derived data collected along AZMP transects during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{cruise_id}{A unique identifier for the mission/cruise}
#' \item{odf_filename}{The original data file name}
#'
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' \item{integrated_silicate_0_50}{Silicate concentrations integrated between 0 and 50 metres}
#' \item{integrated_silicate_50_150}{Silicate concentrations integrated between 50 and 150 metres}
#' \item{integrated_chlorophyll_0_100}{Chlorophyll concentrations integrated between 0 and 100 metres}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Derived_Occupations_Sections"
#' Zooplankton Occupation Section data
#'
#' Zooplankton data collected along AZMP transects during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{cruise_id}{A unique identifier for the mission/cruise}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#'
#' \item{calanus_finmarchicus_abundance}{Abundance of calanus finmarchicus }
#' \item{pseudocalanus_abundance}{Abundance of pseudocalanus }
#' \item{copepods}{Abundance of copepods group with a log 10 transform }
#' \item{non_copepods}{Abundance of non-copepods group }
#' \item{Arctic_Calanus_species}{Abundance of arctic calanus group }
#' \item{warm_offshore_copepods}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis)}
#' \item{warm_shelf_copepods}{Abundance of warm shelf copepods group (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_meso_wet_weight}{Wet weight of meso zooplankton}
#' \item{zooplankton_macro_wet_weight}{Wet weight of macro zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton from sampling}
#' }
#'
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, zooplankton }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Occupations_Sections"
#' Discrete Occupation Section data
#'
#' Discrete data collected along AZMP transects during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{cruise_id}{A unique identifier for the mission/cruise}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#' \item{nominal_depth}{The depth at which data was planned to be collected - sometime differs slightly from actual collection depth}
#' \item{odf_filename}{The original data file name}
#'
#' \item{nitrate}{Discrete measurements of nitrate concentration in the water column at a range of depths }
#' \item{silicate}{Discrete measurements of silicate concentration in the water column at a range of depths }
#' \item{phosphate}{Discrete measurements of phosphate concentration in the water column at a range of depths }
#' \item{chlorophyll}{Discrete measurements of chlorophyll concentration in the water column at a range of depths }
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{sigmaTheta}{Discrete density measurements over a range of depths}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical, physical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
#'
"Discrete_Occupations_Sections"
#' Derived Annual Section data
#'
#' Derived data collected along AZMP transects each year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{density}{Discrete density measurements over a range of depths}
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' \item{integrated_silicate_0_50}{Silicate concentrations integrated between 0 and 50 metres}
#' \item{integrated_silicate_50_150}{Silicate concentrations integrated between 50 and 150 metres}
#' \item{integrated_chlorphyll_0_100}{Chlorophyll concentrations integrated between 0 and 100 metres}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical, physical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
"Derived_Annual_Sections"
#' Zooplankton Annual Section data
#'
#' Zooplankton data collected along AZMP transects each year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{calanus_finmarchicus_log10}{Abundance of calanus finmarchicus with a log 10 transform }
#' \item{copepods_log10}{Abundance of copepods group with a log 10 transform }
#' \item{non_copepods_log10}{Abundance of non-copepods group with a log 10 transform }
#' \item{Arctic_Calanus_species_log10}{Abundance of arctic calanus group with a log 10 transform }
#' \item{warm_offshore_copepods_log10}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis) with a log 10 transform }
#' \item{warm_shelf_copepods_log10}{Abundance of warm shelf copepods group with a log 10 transform (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{pseudocalanus_log10}{Abundance of pseudocalanus with a log 10 transform }
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton from sampling}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical, zooplankton }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Annual_Sections"
#' Derived Monthly Broadscale data
#'
#' Derived data averaged over broad regions and months.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#'
#' \item{river_flux}{A measure of the flux exiting from the St. Lawrence river into the Gulf of St. Lawrence. }
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Monthly}
#' \item{regional_scale}{Broadscale}
#' \item{category}{physical}
#' }
#'
#' @details The data can be cited as follows:
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Derived_Monthly_Broadscale"
#' Derived Annual broadscale data
#'
#' Derived data averaged over broad regions and years.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{sea_temperature_at_sea_floor_july}{Temperature at sea floor during the month of July, averaged over NAFO areas 4X, 4W and 4V.}
#' \item{sea_surface_temperature}{Temperature at sea surface averaged over NAFO regions 4V, 4X and 4W as well as regional areas (Bay of Fundy + Gulf of Maine)}
#' \item{north_atlantic_oscillation}{North Atlantic Oscillation Index (NAO), calculated using sea level pressure difference between subtropical high and subpolar low}
#' \item{atlantic_multidecadal_oscillation}{Atlantic Multidecadal Oscillation Index (AMO), based on anomalies of sea surface temperatures in North Atlantic basin. }
#' \item{cold_intermediate_layer_volume}{A measure of the volume of the cold intermediate layer throughout the Gulf of St. Lawrence}
#' \item{sea_ice_volume}{Average ice volume for January - March in the Gulf of St. Lawrence, can be reasonably used as a proxy to represent sea ice volume on the Scotian Shelf. }
#' \item{density_gradient_0_50}{An index of stratification, measured as the density difference between 0 and 50 metres}
#' \item{temperature_at_sea_floor}{Averaged water temperatures at sea floor, over NAFO areas 4X, 4V and 4W}
#' \item{minimum_temperature_in_cold_intermediate_layer}{Minimum temperature in the cold intermediate layer within the Gulf of St. Lawrence }
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{sea_surface_temperature_from_satellite}{Averages of sea surface temperatures infered from remote sensing (satellite) measurements}
#' \item{sea_surface_temperature_warming}{Derived metric calculating the warming of sea surface temperature averages over the Scotian Shelf}
#' \item{final_day_of_sea_ice}{The final day of sea ice observed in the Gulf of St. Lawrence. Note that this metric can be used as a reasonable proxy for the Scotian Shelf}
#' \item{sea_ice_area}{Average of sea ice area, seaward of Cabot Strait}
#' \item{surface_chlorphyll}{Average surface chlorophyll as inferred from satellite (remote sensing) measurements}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Broadscale}
#' \item{category}{ biological, biochemical, physical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
"Derived_Annual_Broadscale"
#' Remote sensing weekly broadscale data
#'
#' Remote Sensing data averaged over broad regions and weeks.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{week}{The week in which data was collected (numeric)}
#'
#' \item{surface_chlorophyll}{Average surface chlorophyll as inferred from satellite (remote sensing) measurements}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Weekly}
#' \item{regional_scale}{Broadscale}
#' \item{category}{ biological, biochemical, satellite }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#'
"RemoteSensing_Weekly_Broadscale"
#' Remote sensing Annual broadscale data
#'
#' Remote Sensing data averaged over broad regions and years.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{surface_chlorophyll_log10}{Average surface chlorophyll as inferred from satellite (remote sensing) measurements, with a log 10 transform}
#' \item{bloom_start}{Start of pythoplankton bloom, from satellite}
#' \item{bloom_duration}{Length of phytoplankton bloom, from satellite}
#' \item{bloom_amplitude}{Amplitude of phytoplankton bloom, from satellite}
#' \item{bloom_magnitude}{Magnitude of phytoplankton bloom, from satellite}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Broadscale}
#' \item{category}{ biolgocial, biochemical, satellite }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"RemoteSensing_Annual_Broadscale"
#' Ice Annual Broadscale data
#'
#' Annual sea-ice metrics calculated for the combined Gulf of St. Lawrence and
#' Scotian Shelf area.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{ice_area}{Surface area covered by sea-ice in km^2}
#' \item{ice_volume}{Volume of sea-ice in km^3}
#' \item{ice_duration}{Average length of sea-ice occurrence in days}
#' \item{ice_first_day}{Average start day of sea-ice occurrence (day of year)}
#' \item{ice_last_day}{Average end day of sea-ice occurrence (day of year)}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Broadscale}
#' \item{category}{physical, sea-ice}
#' }
#'
#' @details The data can be cited as follows:
#' Galbraith, P.S. 2020. Personal communication.
#'
"Ice_Annual_Broadscale"
casaultb/azmpdata documentation built on July 4, 2025, 11:04 a.m.
R Package Documentation
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# data set documentation
#' Zooplankton seasonal section data
#'
#' A dataframe containing seasonal section zooplankton data.
#'
#'
#' @format A dataframe with 152 observations of 6 variables:
#'
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#'
#' \item{Calanus_finmarchicus_log10}{Abundance of Calanus finmarchicus with a log10 transform}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton sampled}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Seasonal}
#' \item{regional_scale}{Section}
#' \item{category}{Zooplankton, biological, biochemical}
#' }
#'
#'
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
"Zooplankton_Seasonal_Sections"
#' Zooplankton seasonal broadscale data
#'
#' A dataframe containing seasonal broadscale zooplankton data.
#'
#'
#' @format A dataframe containing 40 observations of 6 variables:
#' \describe{
#' \item{region}{The region in which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#'
#'
#' \item{Calanus_finmarchicus_log10}{Abundance of Calanus finmarchicus with a log10 transform}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton sampled}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Seasonal}
#' \item{regional_scale}{Broadscale}
#' \item{category}{Zooplankton, biological, biochemical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
"Zooplankton_Seasonal_Broadscale"
#' Zooplankton Occupation Broadscale data
#'
#' A dataframe containing seasonal broadscale zooplankton data.
#'
#'
#' @format A dataframe containing 1177 obesrvations of 10 variables
#' \describe{
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#' \item{sample_id}{A unique identifier for each sample, sample id
#' appended by the cruise number to ensure uniqueness}
#'
#' \item{Calanus_finmarchicus_abundance}{Abundance of Calanus finmarchicus}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton sampled}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Broadscale}
#' \item{category}{Zooplankton, biological, biochemical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
"Zooplankton_Occupations_Broadscale"
#' Derived Occupation Station data
#'
#' Metrics derived from data collected at fixed station locations during individual occupations.
#'
#'
#'
#' @format A dataframe with 737 observations of 14 variables
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#' \item{nominal_depth}{The depth at which data was planned to be collected - sometime differs slightly from actual collection depth}
#'
#' \item{mixed_layer_depth}{The depth of the well mixed surface layer at fixed stations}
#' \item{density_gradient_0_50}{An index of stratification, measured as the density difference between 0 and 50 metres}
#' \item{euphotic_depth}{The depth of the euphotic zone measured at fixed stations}
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' \item{integrated_silicate_0_50}{Silicate concentrations integrated between 0 and 50 metres}
#' \item{integrated_silicate_50_150}{Silicate concentrations integrated between 50 and 150 metres}
#' \item{integrated_chlorophyll_0_100}{Chlorophyll concentrations integrated between 0 and 100 metres}
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, biochemical, physical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
#'
"Derived_Occupations_Stations"
#' Zooplankton Occupations Stations data
#'
#' Zooplankton data collected at fixed stations during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#'
#' \item{Acartia_abundance}{Abundance of acartia}
#' \item{Eurytemora_abundance}{Abundance of eurytemora}
#' \item{Temora_longicornis_abundance}{Abundance of temora longicornis }
#' \item{other_copepods}{Abundance of other copepods group}
#' \item{copepods}{Abundance of copepods group }
#' \item{non_copepods}{Abundance of non-copepods group }
#' \item{Arctic_Calanus_species}{Abundance of arctic calanus group }
#' \item{warm_offshore_copepods}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis) }
#' \item{warm_shelf_copepods}{Abundance of warm shelf copepods group (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{calanus_finmarchicus_abundance}{Abundance of calanus finmarchicus }
#' \item{calanus_hyperboreus_abundance}{Abundance of Calanus Hyperboreus}
#' \item{calanus_glacialis_abundance}{Abundance of Calanus Glacialis}
#' \item{pseudocalanus_abundance}{Abundance of pseudocalanus}
#' \item{metridia_longa_abundance}{Abundance of Metridia longa}
#' \item{metridia_lucens_abundance}{Abundance of Metridia lucens}
#' \item{metridia_spp_abundance}{Abundance of Metridia spp}
#' \item{microcalanus_spp_abundance}{Abundance of microcalanus}
#' \item{oithona_spp_abundance}{Abundance of Oithona spp}
#' \item{oithona_similis_abundance}{Abundance of Oithona similis}
#' \item{oithona_atlantica_abundance}{Abundance of Oithona atlantica}
#' \item{paracalanus_spp_abundance}{Abundance of paracalanus}
#' \item{centropages_typicus_abundance}{Abundance of Centropages typicus}
#' \item{centropages_spp_abundance}{Abundance of Centropages spp}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_meso_wet_weight}{Wet weight of meso zooplankton}
#' \item{zooplankton_macro_wet_weight}{Wet weight of macro zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton}
#' \item{calanus_abundance_stage_c1}{Stage seperated calanus abundance (stage c1)}
#' \item{calanus_abundance_stage_c2}{Stage seperated calanus abundance (stage c2)}
#' \item{calanus_abundance_stage_c3}{Stage seperated calanus abundance (stage c3)}
#' \item{calanus_abundance_stage_c4}{Stage seperated calanus abundance (stage c4)}
#' \item{calanus_abundance_stage_c5}{Stage seperated calanus abundance (stage c5)}
#' \item{calanus_abundance_stage_c6}{Stage seperated calanus abundance (stage c6)}
#'}
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, zooplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Occupations_Stations"
#' Phytoplankton Occupation Station data
#'
#' Phytoplankton data collected at fixed stations during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#'
#' \item{diatoms}{Abundance of diatoms group, using Fucoxanthin as a measurement proxy}
#' \item{dinflagellates}{Abundance of dinoflagellates group, using Peridinin as a measurement proxy}
#' \item{flagellates}{Abundance of flagellates group}
#' \item{ciliates}{Abundance of ciliates group}
#' \item{microzooplankton}{Abundance of microzooplankton group}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Phytoplankton_Occupations_Stations"
#' Discrete Occupation Station data
#'
#' Discrete data collected at fixed stations during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#' \item{nominal_depth}{The depth at which data was planned to be collected - sometime differs slightly from actual collection depth}
#'
#' \item{nitrate}{Discrete measurements of nitrate concentration in the water column at a range of depths }
#' \item{silicate}{Discrete measurements of silicate concentration in the water column at a range of depths }
#' \item{phosphate}{Discrete measurements of phosphate concentration in the water column at a range of depths }
#' \item{chlorophyll}{Discrete measurements of chlorophyll concentration in the water column at a range of depths }
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{sigmaTheta}{Discrete density measurements over a range of depths}
#'
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton, biochemical, physical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Discrete_Occupations_Stations"
#' Derived Monthly Station data
#'
#' Derived data products from fixed stations collected monthly.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#'
#'
#' \item{sea_surface_height}{Average of sea surface height at Yarmouth and Halifax NS}
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Monthly}
#' \item{regional_scale}{Station}
#' \item{category}{ physical}
#' }
#'
#' @details The data can be cited as follows:
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Derived_Monthly_Stations"
#' Derived Annual station data
#'
#' Derived data collected at fixed stations by year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{temperature_in_air}{Average air temperatures over annual scales at specific stations including Sable Island}
#' \item{denisty}{Discrete density measurements over a range of depths}
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{integrated_sea_temperature_0_50}{Averages of temperature measurements, integrated between 0 and 50 metres}
#' \item{integrated_salinity_0_50}{Averages of salinity measurements, integrated between 0 and 50 metres}
#' \item{integrated_sigmaTheta_0_50}{Averages of density measurements, integrated between 0 and 50 metres}
#' \item{temperature_0}{Averages for temperature at 0 metres at Prince 5 (P5) and Halifax 2 (HL2) stations}
#' \item{temperature_90}{Averages for temperature at 90 metres at Prince 5 (P5) and Halifax 2 (HL2) stations}
#' \item{sea_surface_temperature_from_moorings}{Averages of sea surface temperatures recorded by mooring at Halifax, NS and St. Andrews, NB}
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton, biochemical, physical}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Derived_Annual_Stations"
#' Zooplankton Annual Stations data
#'
#' Zooplankton data collected at fixed stations by year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{calanus_finmarchicus_log10}{Abundance of calanus finmarchicus with
#' a log 10 transform }
#' \item{Acartia_log10}{Abundance of acartia with a log 10 transform }
#' \item{Eurytemora_log10}{Abundance of eurytemora with a log 10 transform }
#' \item{Temora_longicorns_log10}{Abundance of temora longicornis with a log 10 transform }
#' \item{other_copepods_log10}{Abundance of other copepods group with a log 10 transform }
#' \item{copepods_log10}{Abundance of copepods group with a log 10 transform }
#' \item{non_copepods_log10}{Abundance of non-copepods group with a log 10 transform }
#' \item{Arctic_Calanus_species_log10}{Abundance of arctic calanus group with a log 10 transform }
#' \item{warm_offshore_copepods_log10}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis) with a log 10 transform }
#' \item{warm_shelf_copepods_log10}{Abundance of warm shelf copepods group with a log 10 transform (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{calanus_hyperboreus_log10}{Abundance of calanus hyperboreus with a
#' log 10 transform }
#' \item{pseudocalanus_log10}{Abundance of pseudocalanus with a log 10 transform }
#' \item{metridia_longa_log10}{Abundance of metridia longa with a log 10 transform }
#' \item{metridia_lucens_log10}{Abundance of metridia lucens with a log 10 transform }
#' \item{metridia_spp_log10}{Abundance of metridia spp with a log 10 transform }
#' \item{microcalanus_spp_log10}{Abundance of microcalanus with a log 10 transform }
#' \item{oithona_spp_log10}{Abundance of oithona species with a log 10 transform }
#' \item{oithona_similis_log10}{Abundance of oithona similis with a log 10 transform }
#' \item{oithona_atlantica_log10}{Abundance of oithona atlantica with a log
#' 10 transform }
#' \item{paracalanus_spp_log10}{Abundance of paracalanus with a log 10 transform }
#' \item{centropages_typicus_log10}{Abundance of centropages typicus with a
#' log 10 transform }
#' \item{centropages_spp_log10}{Abundance of centropages species with a log
#' 10 transform }
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton from sampling}
#' }
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, zooplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Annual_Stations"
#' Phytoplankton Annual Station data
#'
#' Phytoplankton data collected at fixed stations by year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{station}{The name of the station where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{diatoms_log10}{Abundance of diatoms with
#' a log 10 transform }
#' \item{dinoflagellates_log10}{Abundance of dinoflagellates with
#' a log 10 transform }
#' \item{flagellates_log10}{Abundance of flagellates with
#' a log 10 transform }
#' \item{ciliates_log10}{Abundance of ciliates with
#' a log 10 transform }
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Station}
#' \item{category}{ biological, phytoplankton}
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Phytoplankton_Annual_Stations"
#' Derived Occupation Section data
#'
#' Derived data collected along AZMP transects during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{cruise_id}{A unique identifier for the mission/cruise}
#' \item{odf_filename}{The original data file name}
#'
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' \item{integrated_silicate_0_50}{Silicate concentrations integrated between 0 and 50 metres}
#' \item{integrated_silicate_50_150}{Silicate concentrations integrated between 50 and 150 metres}
#' \item{integrated_chlorophyll_0_100}{Chlorophyll concentrations integrated between 0 and 100 metres}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Derived_Occupations_Sections"
#' Zooplankton Occupation Section data
#'
#' Zooplankton data collected along AZMP transects during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{season}{The season in which data was collected (Northern Hemisphere)}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{cruise_id}{A unique identifier for the mission/cruise}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#'
#' \item{calanus_finmarchicus_abundance}{Abundance of calanus finmarchicus }
#' \item{pseudocalanus_abundance}{Abundance of pseudocalanus }
#' \item{copepods}{Abundance of copepods group with a log 10 transform }
#' \item{non_copepods}{Abundance of non-copepods group }
#' \item{Arctic_Calanus_species}{Abundance of arctic calanus group }
#' \item{warm_offshore_copepods}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis)}
#' \item{warm_shelf_copepods}{Abundance of warm shelf copepods group (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_meso_wet_weight}{Wet weight of meso zooplankton}
#' \item{zooplankton_macro_wet_weight}{Wet weight of macro zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton from sampling}
#' }
#'
#'
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, zooplankton }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Occupations_Sections"
#' Discrete Occupation Section data
#'
#' Discrete data collected along AZMP transects during individual occupations.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{station}{The name of the station where data was collected}
#' \item{latitude}{The latitude at which data was collected}
#' \item{longitude}{The longitude at which data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{day}{The day on which data was collected}
#' \item{event_id}{A unique identifier for the sampling event}
#' \item{cruise_id}{A unique identifier for the mission/cruise}
#' \item{sample_id}{A unique identifier for the sample}
#' \item{depth}{The depth at which data was actually collected}
#' \item{nominal_depth}{The depth at which data was planned to be collected - sometime differs slightly from actual collection depth}
#' \item{odf_filename}{The original data file name}
#'
#' \item{nitrate}{Discrete measurements of nitrate concentration in the water column at a range of depths }
#' \item{silicate}{Discrete measurements of silicate concentration in the water column at a range of depths }
#' \item{phosphate}{Discrete measurements of phosphate concentration in the water column at a range of depths }
#' \item{chlorophyll}{Discrete measurements of chlorophyll concentration in the water column at a range of depths }
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{sigmaTheta}{Discrete density measurements over a range of depths}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Occupation}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical, physical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
#'
"Discrete_Occupations_Sections"
#' Derived Annual Section data
#'
#' Derived data collected along AZMP transects each year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{density}{Discrete density measurements over a range of depths}
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{integrated_nitrate_0_50}{Nitrate concentrations integrated between 0 and 50 metres}
#' \item{integrated_nitrate_50_150}{Nitrate concentrations integrated between 50 and 150 metres}
#' \item{integrated_phosphate_0_50}{Phosphate concentrations integrated between 0 and 50 metres}
#' \item{integrated_phosphate_50_150}{Phosphate concentrations integrated between 50 and 150 metres}
#' \item{integrated_silicate_0_50}{Silicate concentrations integrated between 0 and 50 metres}
#' \item{integrated_silicate_50_150}{Silicate concentrations integrated between 50 and 150 metres}
#' \item{integrated_chlorphyll_0_100}{Chlorophyll concentrations integrated between 0 and 100 metres}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical, physical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
"Derived_Annual_Sections"
#' Zooplankton Annual Section data
#'
#' Zooplankton data collected along AZMP transects each year.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{section}{Section name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{calanus_finmarchicus_log10}{Abundance of calanus finmarchicus with a log 10 transform }
#' \item{copepods_log10}{Abundance of copepods group with a log 10 transform }
#' \item{non_copepods_log10}{Abundance of non-copepods group with a log 10 transform }
#' \item{Arctic_Calanus_species_log10}{Abundance of arctic calanus group with a log 10 transform }
#' \item{warm_offshore_copepods_log10}{Abundance of warm offshore copepods group (Clausocalanus spp., Mecynocera clausi, and Pleuromamma borealis) with a log 10 transform }
#' \item{warm_shelf_copepods_log10}{Abundance of warm shelf copepods group with a log 10 transform (the summer-fall copepods Paracalanus spp. and Centropages typicus)}
#' \item{pseudocalanus_log10}{Abundance of pseudocalanus with a log 10 transform }
#' \item{zooplankton_meso_dry_weight}{Dry weight of meso zooplankton}
#' \item{zooplankton_total_wet_weight}{Wet weight of all zooplankton from sampling}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Section}
#' \item{category}{ biological, biochemical, zooplankton }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"Zooplankton_Annual_Sections"
#' Derived Monthly Broadscale data
#'
#' Derived data averaged over broad regions and months.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#'
#' \item{river_flux}{A measure of the flux exiting from the St. Lawrence river into the Gulf of St. Lawrence. }
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Monthly}
#' \item{regional_scale}{Broadscale}
#' \item{category}{physical}
#' }
#'
#' @details The data can be cited as follows:
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
"Derived_Monthly_Broadscale"
#' Derived Annual broadscale data
#'
#' Derived data averaged over broad regions and years.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{sea_temperature_at_sea_floor_july}{Temperature at sea floor during the month of July, averaged over NAFO areas 4X, 4W and 4V.}
#' \item{sea_surface_temperature}{Temperature at sea surface averaged over NAFO regions 4V, 4X and 4W as well as regional areas (Bay of Fundy + Gulf of Maine)}
#' \item{north_atlantic_oscillation}{North Atlantic Oscillation Index (NAO), calculated using sea level pressure difference between subtropical high and subpolar low}
#' \item{atlantic_multidecadal_oscillation}{Atlantic Multidecadal Oscillation Index (AMO), based on anomalies of sea surface temperatures in North Atlantic basin. }
#' \item{cold_intermediate_layer_volume}{A measure of the volume of the cold intermediate layer throughout the Gulf of St. Lawrence}
#' \item{sea_ice_volume}{Average ice volume for January - March in the Gulf of St. Lawrence, can be reasonably used as a proxy to represent sea ice volume on the Scotian Shelf. }
#' \item{density_gradient_0_50}{An index of stratification, measured as the density difference between 0 and 50 metres}
#' \item{temperature_at_sea_floor}{Averaged water temperatures at sea floor, over NAFO areas 4X, 4V and 4W}
#' \item{minimum_temperature_in_cold_intermediate_layer}{Minimum temperature in the cold intermediate layer within the Gulf of St. Lawrence }
#' \item{salinity}{Discrete salinity measurements over a range of depths}
#' \item{sea_temperature}{Discrete sea temperature measurements over a range of depths}
#' \item{sea_surface_temperature_from_satellite}{Averages of sea surface temperatures infered from remote sensing (satellite) measurements}
#' \item{sea_surface_temperature_warming}{Derived metric calculating the warming of sea surface temperature averages over the Scotian Shelf}
#' \item{final_day_of_sea_ice}{The final day of sea ice observed in the Gulf of St. Lawrence. Note that this metric can be used as a reasonable proxy for the Scotian Shelf}
#' \item{sea_ice_area}{Average of sea ice area, seaward of Cabot Strait}
#' \item{surface_chlorphyll}{Average surface chlorophyll as inferred from satellite (remote sensing) measurements}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Broadscale}
#' \item{category}{ biological, biochemical, physical }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#' Hebert, D., Pettipas, R., and Brickman, D. 2020. Physical Oceanographic
#' Conditions on the Scotian Shelf and in the Gulf of Maine during 2018. DFO
#' Can. Sci. Advis. Sec. Res. Doc. 2020/036 iv + 52 p.
#'
"Derived_Annual_Broadscale"
#' Remote sensing weekly broadscale data
#'
#' Remote Sensing data averaged over broad regions and weeks.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#' \item{month}{The month in which data was collected (numeric)}
#' \item{week}{The week in which data was collected (numeric)}
#'
#' \item{surface_chlorophyll}{Average surface chlorophyll as inferred from satellite (remote sensing) measurements}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Weekly}
#' \item{regional_scale}{Broadscale}
#' \item{category}{ biological, biochemical, satellite }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
#'
"RemoteSensing_Weekly_Broadscale"
#' Remote sensing Annual broadscale data
#'
#' Remote Sensing data averaged over broad regions and years.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{surface_chlorophyll_log10}{Average surface chlorophyll as inferred from satellite (remote sensing) measurements, with a log 10 transform}
#' \item{bloom_start}{Start of pythoplankton bloom, from satellite}
#' \item{bloom_duration}{Length of phytoplankton bloom, from satellite}
#' \item{bloom_amplitude}{Amplitude of phytoplankton bloom, from satellite}
#' \item{bloom_magnitude}{Magnitude of phytoplankton bloom, from satellite}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Broadscale}
#' \item{category}{ biolgocial, biochemical, satellite }
#' }
#'
#' @details The data can be cited as follows:
#' Casault, B., Johnson, C., Devred, E., Head, E., Cogswell, A., and
#' Spry, J. 2020. Optical, Chemical, and Biological Oceanographic Conditions
#' on the Scotian Shelf and in the Eastern Gulf of Maine during 2018. DFO Can.
#' Sci. Advis. Sec. Res. Doc. 2020/037. v + 66 p.
#'
"RemoteSensing_Annual_Broadscale"
#' Ice Annual Broadscale data
#'
#' Annual sea-ice metrics calculated for the combined Gulf of St. Lawrence and
#' Scotian Shelf area.
#'
#'
#'
#' @format A dataframe
#' \describe{
#' \item{area}{Area name where data was collected}
#' \item{year}{The year in which data was collected}
#'
#' \item{ice_area}{Surface area covered by sea-ice in km^2}
#' \item{ice_volume}{Volume of sea-ice in km^3}
#' \item{ice_duration}{Average length of sea-ice occurrence in days}
#' \item{ice_first_day}{Average start day of sea-ice occurrence (day of year)}
#' \item{ice_last_day}{Average end day of sea-ice occurrence (day of year)}
#' }
#'
#' @note
#' \describe{
#' \item{time_scale}{Annual}
#' \item{regional_scale}{Broadscale}
#' \item{category}{physical, sea-ice}
#' }
#'
#' @details The data can be cited as follows:
#' Galbraith, P.S. 2020. Personal communication.
#'
"Ice_Annual_Broadscale"
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