This code is always in development. Find code used for various reports in the code releases.
This repository was previously named AFSCDataReport and
GAP_BS_DataReport.
The scripts therein reproducibly produce our annual data reports, presentations, and other outreach documents from data to data product.
Emily Markowitz (Emily.Markowitz AT noaa.gov; @EmilyMarkowitz-NOAA)
Liz Dawson (Liz.Dawson AT noaa.gov; @liz-dawson-NOAA)
Chris Anderson (Christopher.Anderson AT noaa.gov; @ChrisAnderson-NOAA)
Alaska Fisheries Science Center,
National Marine Fisheries Service,
National Oceanic and Atmospheric Administration,
Seattle, WA 98195
toc <- strsplit(x = readtext::readtext(file = "./README.Rmd", verbosity = 0)[[2]], split = "\n")
toc <- toc[[1]][substr(x = toc[[1]], start = 1, stop = 1) == "#"]
toc <- toc[-c(1:3)]
toc_list <- toc
toc_list <- gsub(pattern = "### ", replacement = "> - [*", x = toc_list, fixed = TRUE)
toc_list <- gsub(pattern = "## ", replacement = "> - [*", x = toc_list, fixed = TRUE)
toc_list <- gsub(pattern = "# ", replacement = "> - [*", x = toc_list, fixed = TRUE)
toc_link <- tolower(gsub(pattern = " ", replacement = "-",
x = gsub(pattern = "#", replacement = "",
x = gsub(pattern = "# ", replacement = "",
x = toc, fixed = TRUE), fixed = TRUE)))
toc <- paste0(toc_list, "*](#", toc_link, ")", collapse = "\n")
- This code and the associated releases were used to develop the following reports, outreach documents, and presentations:
- Suggestions and Comments
- R Version Metadata
This code and the associated releases were used to develop the following reports, outreach documents, and presentations:
This document is for informational purposes only and does not necessarily represent the views or official position of the Department of Commerce, the National Oceanic and Atmospheric Administration, or the National Marine Fisheries Service. Not to be cited without permission from the authors.
- 11/4/2021 Presentation at the University of Alaska Fairbanks Strait Science Seminar
- 11/4/2022 Presentation at the University of Alaska Fairbanks Strait Science Seminar
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 4.6.1 (2026-06-24 ucrt)
## Platform: x86_64-w64-mingw32/x64
## Running under: Windows 11 x64 (build 22631)
##
## Matrix products: default
## LAPACK version 3.12.1
##
## 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
##
## time zone: America/Los_Angeles
## tzcode source: internal
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] RODBC_1.3-26.2 XML_3.99-0.24 flextable_0.10.0 httr_1.4.8 pingr_2.0.5 scales_1.4.0 raster_3.6-32
## [8] sp_2.2-3 ps_1.9.3 digest_0.6.39 ggspatial_1.1.10 shadowtext_0.1.6 rlist_0.4.6.2 crabpack_1.0.0
## [15] gapindex_3.1.0 coldpool_3.5-3 reshape2_1.4.5 lubridate_1.9.5 fields_17.3 RColorBrewer_1.1-3 spam_2.11-4
## [22] gstat_2.1-6 ggthemes_6.0.0 akgfmaps_4.2.1 terra_1.9-46 stars_0.7-3 abind_1.4-8 sf_1.1-2
## [29] readtext_0.92.1 stringr_1.6.0 janitor_2.2.1 viridis_0.6.5 viridisLite_0.4.3 here_1.0.2 readxl_1.5.0
## [36] tidyr_1.3.2 readr_2.2.0 googledrive_2.1.2 dplyr_1.2.1 plyr_1.8.9 ggridges_0.5.7 ggpubr_1.0.0
## [43] magick_2.9.1 png_0.1-9 cowplot_1.2.0 ggplot2_4.0.3 officedown_0.4.1 officer_0.7.6 rmarkdown_2.31
## [50] knitr_1.51
##
## loaded via a namespace (and not attached):
## [1] jsonlite_2.0.0 rstudioapi_0.19.0 magrittr_2.0.5 farver_2.1.2 fs_2.1.0
## [6] ragg_1.5.2 vctrs_0.7.3 memoise_2.0.1 sampling_2.11 askpass_1.2.1
## [11] rstatix_1.1.0 htmltools_0.5.9 curl_8.0.0 broom_1.0.13 cellranger_1.1.0
## [16] Formula_1.2-6 KernSmooth_2.23-27 htmlwidgets_1.6.4 keyring_1.4.1 zoo_1.9-0
## [21] cachem_1.1.0 uuid_1.2-2 lifecycle_1.0.5 pkgconfig_2.0.3 R6_2.6.1
## [26] fastmap_1.2.0 snakecase_0.11.1 rprojroot_2.1.1 textshaping_1.0.5 timechange_0.4.0
## [31] compiler_4.6.1 gargle_1.6.1 proxy_0.4-29 intervals_0.15.5 bit64_4.8.4
## [36] fontquiver_0.2.1 withr_3.0.3 S7_0.2.2 backports_1.5.1 carData_3.0-6
## [41] DBI_1.3.0 maps_3.4.3 ggsignif_0.6.4 MASS_7.3-66 openssl_2.4.2
## [46] rappdirs_0.3.4 classInt_0.4-11 tools_4.6.1 units_1.0-1 otel_0.2.0
## [51] odbc_1.7.0 zip_3.0.2 glue_1.8.1 grid_4.6.1 getPass_0.2-4
## [56] lpSolve_5.6.23 generics_0.1.4 gtable_0.3.6 tzdb_0.5.0 class_7.3-24
## [61] data.table_1.18.6.1 hms_1.1.4 xml2_1.6.0 car_3.1-5 pillar_1.11.1
## [66] vroom_1.7.1 lattice_0.23-1 FNN_1.1.4.1 bit_4.6.0 tidyselect_1.2.1
## [71] rvg_0.4.2 fontLiberation_0.1.0 fontBitstreamVera_0.1.1 gridExtra_2.3.1 xfun_0.60
## [76] stringi_1.8.9 yaml_2.3.12 evaluate_1.0.5 codetools_0.2-20 gdtools_0.5.1
## [81] tibble_3.3.1 cli_3.6.6 systemfonts_1.3.2 processx_3.9.0 spacetime_1.3-4
## [86] Rcpp_1.1.2 parallel_4.6.1 blob_1.3.0 dotCall64_1.2 ggiraph_0.9.6
## [91] xts_0.14.2 e1071_1.7-17 crayon_1.5.3 purrr_1.2.2 rlang_1.3.0
This repository is a scientific product and is not official communication of the National Oceanic and Atmospheric Administration, or the United States Department of Commerce. All NOAA GitHub project code is provided on an ‘as is’ basis and the user assumes responsibility for its use. Any claims against the Department of Commerce or Department of Commerce bureaus stemming from the use of this GitHub project will be governed by all applicable Federal law. Any reference to specific commercial products, processes, or services by service mark, trademark, manufacturer, or otherwise, does not constitute or imply their endorsement, recommendation or favoring by the Department of Commerce. The Department of Commerce seal and logo, or the seal and logo of a DOC bureau, shall not be used in any manner to imply endorsement of any commercial product or activity by DOC or the United States Government.
Software code created by U.S. Government employees is not subject to copyright in the United States (17 U.S.C. §105). The United States/Department of Commerce reserve all rights to seek and obtain copyright protection in countries other than the United States for Software authored in its entirety by the Department of Commerce. To this end, the Department of Commerce hereby grants to Recipient a royalty-free, nonexclusive license to use, copy, and create derivative works of the Software outside of the United States.
U.S. Department of Commerce | National Oceanographic and Atmospheric Administration | NOAA Fisheries