Repositories list

• estimATM

  Public
  A tool for planning, execution, analysis, and reporting of CPS biomass from surveys using the acoustic-trawl method (ATM)

  R

  •

  Apache License 2.0

  •00 forks in SWFSC/estimATM•44 stars in SWFSC/estimATM•1515 issues in SWFSC/estimATM•00 pull requests in SWFSC/estimATM•Updated Oct 27, 2026Oct 27, 2026

• AirPlot

  Public
  Create maps and plot data from data files in the "AirDAS" format

  R

  •

  Apache License 2.0

  •00 forks in SWFSC/AirPlot•00 stars in SWFSC/AirPlot•00 issues in SWFSC/AirPlot•00 pull requests in SWFSC/AirPlot•Updated Oct 27, 2026Oct 27, 2026

• CruzPlot

  Public
  CruzPlot is is a utility program oriented to create maps and plot data from data files in the "DAS" format, typically produced by WinCruz.

  R

  •

  Apache License 2.0

  •11 fork in SWFSC/CruzPlot•22 stars in SWFSC/CruzPlot•55 issues in SWFSC/CruzPlot•00 pull requests in SWFSC/CruzPlot•Updated Oct 27, 2026Oct 27, 2026

• glider-lab

  Public
  NOAA Fisheries ESD glider lab

  glidersswfsc-esd

  glidersswfsc-esd

  Wolfram Language

  •

  Creative Commons Zero v1.0 Universal

  •00 forks in SWFSC/glider-lab•55 stars in SWFSC/glider-lab•7070 issues in SWFSC/glider-lab•11 pull request in SWFSC/glider-lab•Updated Oct 26, 2026Oct 26, 2026

• glider-processing

  Public
  Configs, scripts, and reports for ESD glider data processing

  glidersswfsc-esdswfsc-esd-gliders

  glidersswfsc-esdswfsc-esd-gliders

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •00 forks in SWFSC/glider-processing•00 stars in SWFSC/glider-processing•00 issues in SWFSC/glider-processing•00 pull requests in SWFSC/glider-processing•Updated Oct 24, 2026Oct 24, 2026

• esdglider

  Public
  Utility functions for ESD glider processing

  glidersswfsc-esd

  glidersswfsc-esd

  Jupyter Notebook

  •

  Apache License 2.0

  •22 forks in SWFSC/esdglider•44 stars in SWFSC/esdglider•44 issues in SWFSC/esdglider•00 pull requests in SWFSC/esdglider•Updated Oct 23, 2026Oct 23, 2026

• standard-glider-files

  Public
  Standard files that are put on all gliders before deployment

  glidersswfsc-esd

  glidersswfsc-esd

  Wolfram Language

  •00 forks in SWFSC/standard-glider-files•22 stars in SWFSC/standard-glider-files•00 issues in SWFSC/standard-glider-files•00 pull requests in SWFSC/standard-glider-files•Updated Oct 20, 2026Oct 20, 2026

• ADMB-krill-spawner-recruit

  Public archive
  ADMB and R code used in Kinzey et al., 2019

  us-amlrswfsc-esd-usamlr

  us-amlrswfsc-esd-usamlr

  Smarty

  •11 fork in SWFSC/ADMB-krill-spawner-recruit•00 stars in SWFSC/ADMB-krill-spawner-recruit•00 issues in SWFSC/ADMB-krill-spawner-recruit•00 pull requests in SWFSC/ADMB-krill-spawner-recruit•Updated Oct 16, 2026Oct 16, 2026

• swfscDAS

  Public
  R package for processing and analyzing DAS data

  R

  •

  Apache License 2.0

  •11 fork in SWFSC/swfscDAS•44 stars in SWFSC/swfscDAS•77 issues in SWFSC/swfscDAS•11 pull request in SWFSC/swfscDAS•Updated Oct 16, 2026Oct 16, 2026

• Mn-AbundsTrends-USWC

  Public
  Code to estimate abundances and trends of USWC humpback whale stocks

  R

  •

  Apache License 2.0

  •00 forks in SWFSC/Mn-AbundsTrends-USWC•00 stars in SWFSC/Mn-AbundsTrends-USWC•00 issues in SWFSC/Mn-AbundsTrends-USWC•00 pull requests in SWFSC/Mn-AbundsTrends-USWC•Updated Oct 14, 2026Oct 14, 2026

• zenodo-test

  Public
  testing

  MIT License

  •00 forks in SWFSC/zenodo-test•00 stars in SWFSC/zenodo-test•00 issues in SWFSC/zenodo-test•00 pull requests in SWFSC/zenodo-test•Updated Oct 14, 2026Oct 14, 2026

• swfscMisc

  Public
  Collection of utility, analytical, mapping, and plotting functions used at the Southwest Fisheries Science Center.

  R

  •11 fork in SWFSC/swfscMisc•00 stars in SWFSC/swfscMisc•00 issues in SWFSC/swfscMisc•00 pull requests in SWFSC/swfscMisc•Updated Oct 12, 2026Oct 12, 2026

• glider-lab-manual

  Public
  Quarto website for SWFSC ESD glider lab

  glidersswfsc-esd

  glidersswfsc-esd

  Lua

  •

  Creative Commons Zero v1.0 Universal

  •11 fork in SWFSC/glider-lab-manual•33 stars in SWFSC/glider-lab-manual•55 issues in SWFSC/glider-lab-manual•00 pull requests in SWFSC/glider-lab-manual•Updated Oct 8, 2026Oct 8, 2026

• SardineRecruitIndex

  Public
  Development of a recruitment index for the northern stock of Pacific sardine

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •22 forks in SWFSC/SardineRecruitIndex•11 star in SWFSC/SardineRecruitIndex•1111 issues in SWFSC/SardineRecruitIndex•00 pull requests in SWFSC/SardineRecruitIndex•Updated Sep 29, 2026Sep 29, 2026

• acousticEffort

  Public
  Code to estimate acoustic survey effort during NOAA surveys using ERDDAP metoc data.

  R

  •

  Apache License 2.0

  •00 forks in SWFSC/acousticEffort•00 stars in SWFSC/acousticEffort•00 issues in SWFSC/acousticEffort•00 pull requests in SWFSC/acousticEffort•Updated Sep 24, 2026Sep 24, 2026

• sardine_age_growth_2012-2021

  Public
  This repository contains the data and analysis used in the manuscript on recent age and growth of Pacific Sardine by James et al.

  R

  •00 forks in SWFSC/sardine_age_growth_2012-2021•00 stars in SWFSC/sardine_age_growth_2012-2021•00 issues in SWFSC/sardine_age_growth_2012-2021•00 pull requests in SWFSC/sardine_age_growth_2012-2021•Updated Sep 11, 2026Sep 11, 2026

• atm

  Public
  A collection of functions used to conduct acoustic-trawl method surveys of coastal pelagic fish species (CPS), analyze the data, and report the results.

  R

  •

  Other

  •00 forks in SWFSC/atm•55 stars in SWFSC/atm•44 issues in SWFSC/atm•00 pull requests in SWFSC/atm•Updated Sep 3, 2026Sep 3, 2026

• CoastwideSardine

  Public
  Repository of code and analyses transitioning to a US coastwide sardine stock assessment

  00 forks in SWFSC/CoastwideSardine•00 stars in SWFSC/CoastwideSardine•00 issues in SWFSC/CoastwideSardine•00 pull requests in SWFSC/CoastwideSardine•Updated Aug 25, 2026Aug 25, 2026

• MSI-report

  Public
  R

  •

  Apache License 2.0

  •00 forks in SWFSC/MSI-report•11 star in SWFSC/MSI-report•11 issue in SWFSC/MSI-report•00 pull requests in SWFSC/MSI-report•Updated Aug 25, 2026Aug 25, 2026

• amlr-gls

  Public
  Code and data for analysis of light-based geolocators (GLS) position estimates collected in 2011, 2012, and 2014

  R

  •

  MIT License

  •00 forks in SWFSC/amlr-gls•00 stars in SWFSC/amlr-gls•00 issues in SWFSC/amlr-gls•00 pull requests in SWFSC/amlr-gls•Updated Aug 19, 2026Aug 19, 2026

• CASM-Mn-abundance-2022

  Public archive
  SCR abundance estimate of humpback whales wintering in Central America and southern Mexico in 2019-2021 (published)

  R

  •

  GNU General Public License v3.0

  •11 fork in SWFSC/CASM-Mn-abundance-2022•00 stars in SWFSC/CASM-Mn-abundance-2022•00 issues in SWFSC/CASM-Mn-abundance-2022•00 pull requests in SWFSC/CASM-Mn-abundance-2022•Updated Aug 5, 2026Aug 5, 2026

• Ziphius-SOAR-assessment-MMS2021

  Public archive
  Version-tracking for code in Dryad repo for 2021 Mar Mam Sci publication assessing Ziphius on SOAR

  R

  •

  GNU General Public License v3.0

  •11 fork in SWFSC/Ziphius-SOAR-assessment-MMS2021•00 stars in SWFSC/Ziphius-SOAR-assessment-MMS2021•00 issues in SWFSC/Ziphius-SOAR-assessment-MMS2021•00 pull requests in SWFSC/Ziphius-SOAR-assessment-MMS2021•Updated Aug 5, 2026Aug 5, 2026

• Mn-StockProportions-USWC-2025

  Public archive
  Final R scripts and results for 2025 Tech Memo on estimating humpback whale stock proportions by latitude for the U.S. West Coast

  R

  •

  Apache License 2.0

  •11 fork in SWFSC/Mn-StockProportions-USWC-2025•00 stars in SWFSC/Mn-StockProportions-USWC-2025•00 issues in SWFSC/Mn-StockProportions-USWC-2025•00 pull requests in SWFSC/Mn-StockProportions-USWC-2025•Updated Aug 5, 2026Aug 5, 2026

• amlr-reports

  Public
  Code for reproducible AMLR reporting

  R

  •

  Creative Commons Zero v1.0 Universal

  •00 forks in SWFSC/amlr-reports•00 stars in SWFSC/amlr-reports•00 issues in SWFSC/amlr-reports•00 pull requests in SWFSC/amlr-reports•Updated Jul 7, 2026Jul 7, 2026

• viame-web-noaa-gcp

  Public
  Deploy an instance of VIAME-Web in GCP in the NOAA Fisheries Cloud

  Shell

  •

  Other

  •00 forks in SWFSC/viame-web-noaa-gcp•55 stars in SWFSC/viame-web-noaa-gcp•66 issues in SWFSC/viame-web-noaa-gcp•11 pull request in SWFSC/viame-web-noaa-gcp•Updated Jul 2, 2026Jul 2, 2026

• surveyR

  Public
  A package containing functions used by the Advanced Survey Technologies group at NOAA's Southwest Fisheries Science Center.

  R

  •

  Other

  •00 forks in SWFSC/surveyR•00 stars in SWFSC/surveyR•00 issues in SWFSC/surveyR•00 pull requests in SWFSC/surveyR•Updated Jun 23, 2026Jun 23, 2026

• SDMforecastr

  Public
  Species Distribution Model Forecasts in R

  R

  •

  Other

  •11 fork in SWFSC/SDMforecastr•11 star in SWFSC/SDMforecastr•00 issues in SWFSC/SDMforecastr•00 pull requests in SWFSC/SDMforecastr•Updated Jun 17, 2026Jun 17, 2026

• atmData

  Public
  R

  •

  Creative Commons Zero v1.0 Universal

  •00 forks in SWFSC/atmData•11 star in SWFSC/atmData•22 issues in SWFSC/atmData•00 pull requests in SWFSC/atmData•Updated May 4, 2026May 4, 2026

• tamatoamlr

  Public
  R package with associated Shiny app for analyzing and visualizing data from the AERD Pinniped Research Program

  rus-amlrswfsc-esd-usamlr

  rus-amlrswfsc-esd-usamlr

  R

  •

  Apache License 2.0

  •22 forks in SWFSC/tamatoamlr•00 stars in SWFSC/tamatoamlr•88 issues in SWFSC/tamatoamlr•00 pull requests in SWFSC/tamatoamlr•Updated Apr 23, 2026Apr 23, 2026

• SphereSoundSpeeds

  Public
  Estimate the longitudinal and latitudinal sound speeds of a standard calibration sphere

  MATLAB

  •

  Other

  •00 forks in SWFSC/SphereSoundSpeeds•22 stars in SWFSC/SphereSoundSpeeds•33 issues in SWFSC/SphereSoundSpeeds•00 pull requests in SWFSC/SphereSoundSpeeds•Updated Apr 22, 2026Apr 22, 2026