In EmilyMarkowitz-NOAA/GAPsurvey: Provides at-sea data management tools for RACE GAP surveys

knitr::opts_chunk$set(
  message = FALSE, 
  error = FALSE, 
  warning = FALSE, 
  echo = FALSE, 
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/",
  fig.height = 1
)
link_repo <- "https://github.com/afsc-gap-products/GAPsurvey"
link_repopage <- "https://afsc-gap-products.github.io/GAPsurvey"
require(ggplot2)

GAPsurvey r link_repopage}>

This code is always in development

This code is primarally maintained by:

Emily Markowitz (Emily.Markowitz AT noaa.gov; @EmilyMarkowitz-NOAA)

Sean Rohan (Sean.Rohan AT noaa.gov; @MargaretSiple-NOAA)

Alaska Fisheries Science Center,

National Marine Fisheries Service,

National Oceanic and Atmospheric Administration,

Seattle, WA 98195

Table of contents

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")

r toc

At-sea data management tools for RACE GAP surveys

Make sure the necessary packages are installed

library(devtools)

devtools::install_github("afsc-gap-products/GAPsurvey")
# Or
remotes::install_github("afsc-gap-products/GAPsurvey@main")

library(GAPsurvey)

or install from local file .tar.gz:

# example, the user may have a different path
install.packages('C:/Users/User/Downloads/GAPsurvey_2025.04.09.tar.gz',
                 repos=NULL, type='source')
library(GAPsurvey)

User Resources

• GitHub repository.

• Access Tips and Documentation for All Production Data

• Fisheries One Stop Shop (FOSS)

• Groundfish Assessment Program Bottom Trawl Surveys

• AFSC’s Resource Assessment and Conservation Engineering Division

• Survey code books

• Publications and Data Reports

• Research Surveys conducted at AFSC

Cite this data

Use the below bibtext citations for citing the package created and maintained in this repo. Add "note = {Accessed: mm/dd/yyyy}" to append the day this data was accessed.

cat(readLines(con = here::here("inst/CITATION.bib")), sep = "\n") 

Relevant publications

source("https://raw.githubusercontent.com/afsc-gap-products/citations/main/cite/current_data_tm.r") # srvy_cite 

Learn more about these surveys [r paste0("@", srvy_cite$CITE, collapse = "; ")].

Suggestions and Comments

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.

R Version Metadata

sessionInfo()

NOAA README

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.

NOAA License

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

EmilyMarkowitz-NOAA/GAPsurvey documentation built on April 14, 2025, 9:26 a.m.