cold pool index - coldpool 3.4-3

coldpool 3.4-3 (March 7, 2025)

NEW FEATURES

• Added salinity rasters and time series as built-in data sets.

FUNCTIONALITY CHANGES

• Files from /data/ moved to /assets/ to allow lazy data.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA about 2 months ago

cold pool index - v3.4-2

coldpool 3.4-2 (November 15, 2024)

BUG FIX

• Fix error when interpolate_variable(bbox = NULL).

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA 5 months ago

cold pool index - v3.4-1

coldpool 3.4-1 (August 22, 2024)

NEW FEATURES

• Added temperature isotherm extent as built-in data sets for
  the NBS (see ?nbs_mean_temperature).

DATA UPDATE

• Update with 2024 survey data.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA 8 months ago

cold pool index - v3.3-1

coldpool 3.3-1 (February 23, 2023)

NEW FEATURES

• Added kriging_cv() function to compare kriging methods
  using cross-validation for ordinary kriging,co-kriging, and
  regression kriging.
• Added estimate_z_expansion() function to estimate the vertical
  expansion factors for 3D kriging based on cross-validation.
• Added estimate_anisotropy() function for estimating 2D
  anisotropy in variograms using cross-validation.
• Added new file naming conventions and masking options to
  interpolate_variable(), which should deprecate data2raster()
  in a future release.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA about 1 year ago

cold pool index - v3.2-1: Finalized 2023 EBS and NBS data

This package update to version 3.2-1 includes finalized 2023 northern Bering Sea (EBS) data and data products. Finalized 2023 eastern Bering Sea (EBS) shelf data products were provided in the prior update (coldpool version 3.1-1).

Update:

• Finalized bottom and surface temperature data from the 2023 NBS bottom trawl survey (ebs_nbs_temperature_full_area.csv).
• Finalized 2023 data products for the NBS and combined EBS+NBS (built-in data sets).
• New figures showing 2023 data products for the NBS and combined EBS+NBS (plots directory).

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 1 year ago

cold pool index - v3.1-1

BUG FIX

Modified interpolate_variable to accept sf objects as an argument to select.region. Enables production of temperature products with a user-defined extent and matches functionality from prior to the switch from rgdal/raster/sp to terra/sf. Example: https://github.com/afsc-gap-products/coldpool/blob/main/analysis/roms_level3_coldpool_part2.R

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 1 year ago

cold pool index - v3.0-1: Preliminary 2023 update

Preliminary update for 2023 that includes:

• 2023 EBS temperature products.
• Provisional NBS bottom temperature (no NBS surface temperature).
• New annual bottom temperature plots to /plots/annual_bt.
• Replacement of old raster package functionality with functions from the terra package.

The package and data products will be updated again once NBS data are finalized (by the end of September 2023).

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 1 year ago

cold pool index - v2.2-2

Minor fix to remove plyr from depends

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA almost 2 years ago

cold pool index - 2.2: Interpolate to a raster stack

Added new functions provided by @kakearney to facilitate comparison between coldpool data products and Bering10K output.

New functions:

• data2raster(): interpolates and mask variable to a raster stack using a user-specified interpolation method.
• calcindicies_temp(): Calculates temperature indices from a .csv file.
• parseregion(): Handles CRS transformation (w/ sf::st_transform) or retrieval of bottom trawl survey shapefiles (w/ akgfmaps::get_base_layers).

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA about 2 years ago

cold pool index - 2.1: 2022 Finalized NBS

This update includes finalized 2022 northern Bering Sea (EBS) data and data products. Finalized 2022 eastern Bering Sea (EBS) shelf data products were provided in the prior update (coldpool version 2.1).

Update:

• Finalized bottom and surface temperature data from the 2022 NBS bottom trawl survey (ebs_nbs_temperature_full_area.csv).
• Finalized 2022 data products for the NBS and combined EBS+NBS (built-in data sets).
• New figures showing 2022 data products for the NBS and combined EBS+NBS (plots directory).

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 2 years ago

cold pool index - 2.0: 2022 Update

This update includes the 2022 EBS shelf bottom trawl survey temperature data products and preliminary 2022 NBS data products. NBS data products will be finalized in mid-September.

Update:

• New bottom and surface temperature data from the 2022 EBS shelf bottom trawl survey.
• Preliminary bottom and surface temperature data from the 2022 NBS bottom trawl survey (to be updated and finalized in mid-September 2022)
• Updated 2022 data products for the EBS shelf (mean bottom temperature, mean surface temperature, cold pool area, temperature for strata < 100 m) and preliminary data products for the NBS and EBS+NBS.
• New figures showing 2022 temperature data for the EBS and preliminary figures for the NBS and EBS+NBS.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 2 years ago

cold pool index - 1.4

Added deprecated historical data sets to built in data:

• Stratum-area weighted mean bottom and surface temperatures for EBS shelf standard and standard+PlusNW
• Stratum-area weighted mean bottom and surface temperatures for the NBS
• Mean bottom and surface temperatures from EBS hauls conducted at bottom depths < 100 m.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA about 3 years ago

cold pool index - 1.3

Added mean bottom temperature for EBS shelf standard strata with bottom temperature < 100m, which is obtained by masking bottom temperature rasters.

The data product time series is included in /R/sysdata.rda and can be accessed using:

coldpool::cold_pool_index$MEAN_BT_LT100M.

This data product replaces the mean bottom temperature < 100 m data set described in Nichol et al. (2019), which was calculated by averaging bottom temperature from all <100 m bottom depth survey stations in standard strata (i.e., excluding northwest strata).

Nichol, D.G., Kotwicki, S., Wilderbuer, T.K., Lauth, R.R., Ianelli, J.N., 2019. Availability of yellowfin sole Limanda aspera to the eastern Bering Sea trawl survey and its effect on estimates of survey biomass. Fish. Res. 211, 319–330. https://doi.org/10.1016/j.fishres.2018.11.017

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA about 3 years ago

cold pool index - 1.1

• Update queries and data products to exclude temperature data collected during cooperative survey hauls from May 1991.
• Add functions to generate figures and tables for comparison project.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA about 3 years ago

cold pool index - 1.0

Final release for 2021 assessment/ESR cycle.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 3 years ago

cold pool index - v0.5

Minor update to make a stacked area plot with a simplified label (i.e., no "PlusNW" in the y-axis label).

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 3 years ago

cold pool index - v0.4

Updated with ESR text, references, and formatted figures.

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 3 years ago

cold pool index - v0.3

Added support for NBS and full EBS.

Updates:

• Set up extent for interpolation grids in the NBS and full EBS
• Added NBS and full EBS masking using akgfmaps package
• Added full EBS + NBS query to inst/sql
• Added full EBS rasters for 2010, 2017, 2018, 2019, and 2021 to sysdata.rda
• Updated data documentation with information about full EBS rasters

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 3 years ago

cold pool index - v0.1

Initial release of coldpool package. See pull request for details (#8 )

Biosphere - Marine Life and Fishery - HTML
Published by sean-rohan-NOAA over 3 years ago