The scripts therein reproducibly produce our typical data products.
This code is always in development. Find code used for various reports in the code releases.
Emily Markowitz (Emily.Markowitz AT noaa.gov; @EmilyMarkowitz-NOAA)
Zack Oyafuso (Zack.Oyafuso AT noaa.gov; @zoyafuso-NOAA)
Alaska Fisheries Science Center,
National Marine Fisheries Service,
National Oceanic and Atmospheric Administration,
Seattle, WA 98195
The code in this repository is regularly being updated and improved. Please refer to releases for finalized products and project milestones.
Use the below bibtext citations, as cited in our group’s citation repository for citing the data created and maintained in this repo. Add “note = {Accessed: mm/dd/yyyy}” to append the day this data was accessed. Included here are AFSC RACE Groundfish and Shellfish Assessment Program’s:
- Design-Based Production Data (NOAA Fisheries Alaska Fisheries Science Center, Groundfish Assessment Program, 2024).
- Public Data hosted on the Fisheries One Stop Shop (FOSS) Data Platform (NOAA Fisheries Alaska Fisheries Science Center, 2024).
There are no legal restrictions on access to the data. They reside in public domain and can be freely distributed.
User Constraints: Users must read and fully comprehend the metadata prior to use. Data should not be used beyond the limits of the source scale. Acknowledgement of AFSC Groundfish Assessment Program, as the source from which these data were obtained, in any publications and/or other representations of these data, is suggested.
General questions and more specific data requests can be sent to nmfs.afsc.gap.metadata@noaa.gov or submitted as an issue on our GitHub Organization. The version of this data used for stock assessments can be found through the Alaska Fisheries Information Network (AKFIN). For questions about the eastern Bering Sea surveys, contact Duane Stevenson (Duane.Stevenson@noaa.gov). For questions about the Gulf of Alaska or Aleutian Islands surveys, contact Ned Laman (Ned.Laman@noaa.gov). For questions specifically about crab data in any region, contact Mike Litzow (Mike.Litzow@noaa.gov), the Shellfish Assessment Program lead.
For questions, comments, and concerns specifically about the Fisheries One Stop Shop (FOSS) platform, please contact us using the Comments page on the FOSS webpage.
source("https://raw.githubusercontent.com/afsc-gap-products/citations/main/cite/current_data_tm.r") # srvy_cite Learn more about these surveys (Hoff, 2016; Markowitz et al., 2024, 2024; Siple et al., 2024; Von Szalay et al., 2023; Zacher et al., 2024).
Hoff, G. R. (2016). Results of the 2016 eastern Bering Sea upper continental slope survey of groundfishes and invertebrate resources (NOAA Tech. Memo. NOAA-AFSC-339). U.S. Dep. Commer. https://doi.org/10.7289/V5/TM-AFSC-339
Markowitz, E. H., Dawson, E. J., Wassermann, S., Anderson, A. B., Rohan, S. K., Charriere, B. K., and Stevenson, D. E. (2024). Results of the 2023 eastern and northern Bering Sea continental shelf bottom trawl survey of groundfish and invertebrate fauna (NOAA Tech. Memo. NMFS-AFSC-487; p. 242). U.S. Dep. Commer. https://doi.org/10.25923/2mry-yx09
Siple, M. C., Szalay, P. G. von, Raring, N. W., Dowlin, A. N., and Riggle, B. C. (2024). Data report: 2023 gulf of alaska bottom trawl survey (NOAA Tech. Memo. AFSC processed report; 2024-09). U.S. Dep. Commer. https://doi.org/10.25923/gbb1-x748
Von Szalay, P. G., Raring, N. W., Siple, M. C., Dowlin, A. N., Riggle, B. C., and Laman, E. A. and. (2023). Data report: 2022 Aleutian Islands bottom trawl survey (AFSC Processed Rep. 2023-07; p. 230). U.S. Dep. Commer. https://doi.org/10.25923/85cy-g225
Zacher, L. S., Richar, J. I., Fedewa, E. J., Ryznar, E. R., and Litzow, M. A. (2024). The 2024 eastern Bering Sea continental shelf trawl survey: Results for commercial crab species DRAFT [NOAA Tech. Memo.]. https://www.fisheries.noaa.gov/resource/document/draft-2024-eastern-bering-sea-crab-technical-memorandum
If you see that the data, product, or metadata can be improved, you are invited to create a pull request, submit an issue to the GitHub organization, or submit an issue to the code’s repository.
sessionInfo()## R version 4.4.1 (2024-06-14 ucrt)
## Platform: x86_64-w64-mingw32/x64
## Running under: Windows 10 x64 (build 19045)
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## Matrix products: default
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## locale:
## [1] LC_COLLATE=English_United States.utf8 LC_CTYPE=English_United States.utf8 LC_MONETARY=English_United States.utf8
## [4] LC_NUMERIC=C LC_TIME=English_United States.utf8
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## time zone: America/Los_Angeles
## tzcode source: internal
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## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## loaded via a namespace (and not attached):
## [1] gtable_0.3.5 xfun_0.47 ggplot2_3.5.1 odbc_1.5.0 vctrs_0.6.5
## [6] tools_4.4.1 generics_0.1.3 tibble_3.2.1 proxy_0.4-27 fansi_1.0.6
## [11] blob_1.2.4 pkgconfig_2.0.3 KernSmooth_2.23-24 data.table_1.16.0 ggridges_0.5.6
## [16] assertthat_0.2.1 uuid_1.2-1 lifecycle_1.0.4 flextable_0.9.6 stringr_1.5.1
## [21] compiler_4.4.1 textshaping_0.4.0 munsell_0.5.1 janitor_2.2.0 keyring_1.3.2
## [26] snakecase_0.11.1 fontquiver_0.2.1 fontLiberation_0.1.0 htmltools_0.5.8.1 class_7.3-22
## [31] yaml_2.3.10 pillar_1.9.0 RODBC_1.3-23 gapindex_2.2.0 openssl_2.2.1
## [36] classInt_0.4-10 viridis_0.6.5 fontBitstreamVera_0.1.1 tidyselect_1.2.1 zip_2.3.1
## [41] digest_0.6.37 stringi_1.8.4 sf_1.0-17 dplyr_1.1.4 rprojroot_2.0.4
## [46] fastmap_1.2.0 grid_4.4.1 here_1.0.1 colorspace_2.1-1 cli_3.6.3
## [51] magrittr_2.0.3 utf8_1.2.4 e1071_1.7-14 akgfmaps_3.5.3 gdtools_0.4.0
## [56] scales_1.3.0 bit64_4.0.5 lubridate_1.9.3 timechange_0.3.0 rmarkdown_2.28
## [61] officer_0.6.6 httr_1.4.7 bit_4.0.5 gridExtra_2.3 hms_1.1.3
## [66] askpass_1.2.0 ragg_1.3.2 kableExtra_1.4.0 evaluate_0.24.0 knitr_1.48
## [71] viridisLite_0.4.2 rlang_1.1.4 Rcpp_1.0.13 glue_1.7.0 DBI_1.2.3
## [76] xml2_1.3.6 svglite_2.1.3 rstudioapi_0.16.0 jsonlite_1.8.8 R6_2.5.1
## [81] systemfonts_1.1.0 units_0.8-5
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