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@SWFSC Southwest Fisheries Science Center

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    57 repositories

    • glider-lab

      Public
      NOAA Fisheries ESD glider lab
      glidersswfsc-esd
      glidersswfsc-esd
      HTML
      •
      Creative Commons Zero v1.0 Universal
      •0•4•63•0•Updated Aug 21, 2026Aug 21, 2026

    • glider-lab-manual

      Public
      Quarto website for SWFSC ESD glider lab
      glidersswfsc-esd
      glidersswfsc-esd
      Lua
      •
      Creative Commons Zero v1.0 Universal
      •1•2•5•0•Updated Aug 20, 2026Aug 20, 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
      •0•5•3•0•Updated Aug 20, 2026Aug 20, 2026

    • standard-glider-files

      Public
      Standard files that are put on all gliders before deployment
      glidersswfsc-esd
      glidersswfsc-esd
      Wolfram Language
      •0•1•0•0•Updated Aug 20, 2026Aug 20, 2026

    • 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
      •0•4•10•0•Updated Aug 19, 2026Aug 19, 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
      •0•0•0•0•Updated Aug 19, 2026Aug 19, 2026

    • esdglider

      Public
      Utility functions for ESD glider processing
      glidersswfsc-esd
      glidersswfsc-esd
      Jupyter Notebook
      •
      Apache License 2.0
      •2•4•4•0•Updated Aug 14, 2026Aug 14, 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
      •1•0•0•0•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
      •1•0•0•0•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
      •1•0•0•0•Updated Aug 5, 2026Aug 5, 2026

    • swfscDAS

      Public
      R package for processing and analyzing DAS data
      R
      •
      Apache License 2.0
      •1•4•5•2•Updated Jul 31, 2026Jul 31, 2026

    • amlr-reports

      Public
      Code for reproducible AMLR reporting
      R
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•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
      •0•5•6•1•Updated Jul 2, 2026Jul 2, 2026

    • MSI-report

      Public
      R
      •
      Apache License 2.0
      •0•1•1•0•Updated Jun 26, 2026Jun 26, 2026

    • surveyR

      Public
      A package containing functions used by the Advanced Survey Technologies group at NOAA's Southwest Fisheries Science Center.
      R
      •
      Other
      •0•0•0•0•Updated Jun 23, 2026Jun 23, 2026

    • SDMforecastr

      Public
      Species Distribution Model Forecasts in R
      R
      •
      Other
      •1•1•0•0•Updated Jun 17, 2026Jun 17, 2026

    • acousticEffort

      Public
      Code to estimate acoustic survey effort during NOAA surveys using ERDDAP metoc data.
      R
      •
      Apache License 2.0
      •0•0•0•0•Updated May 28, 2026May 28, 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
      •0•0•0•0•Updated May 13, 2026May 13, 2026

    • atmData

      Public
      R
      •
      Creative Commons Zero v1.0 Universal
      •0•1•2•0•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
      •2•0•8•0•Updated Apr 23, 2026Apr 23, 2026

    • SphereSoundSpeeds

      Public
      Estimate the longitudinal and latitudinal sound speeds of a standard calibration sphere
      MATLAB
      •
      Other
      •0•2•3•0•Updated Apr 22, 2026Apr 22, 2026

    • ssafs-pup-census

      Public
      South Shetland Antarctic fur seal (SSAFS) total synoptic pup counts
      R
      •
      Creative Commons Zero v1.0 Universal
      •1•0•0•0•Updated Apr 15, 2026Apr 15, 2026

    • amlrian

      Public
      A collection of functions, especially for Shiny apps connected to AMLR databases, used by other AMLR packages
      rus-amlrswfsc-esd-usamlr
      rus-amlrswfsc-esd-usamlr
      R
      •
      Apache License 2.0
      •0•0•2•0•Updated Mar 25, 2026Mar 25, 2026

    • SardineRecruitIndex

      Public
      Development of a recruitment index for the northern stock of Pacific sardine
      HTML
      •
      Creative Commons Zero v1.0 Universal
      •2•1•11•0•Updated Jan 15, 2026Jan 15, 2026

    • glider_processing_code

      Public
      US AMLR glider processing code
      acousticsglidersswfsc-esd
      acousticsglidersswfsc-esd
      MATLAB
      •1•0•0•0•Updated Dec 23, 2025Dec 23, 2025

    • 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
      •1•2•5•0•Updated Oct 1, 2025Oct 1, 2025

    • DGNBycatch

      Public
      0•0•0•0•Updated Sep 25, 2025Sep 25, 2025

    • swfscAirDAS

      Public
      Functions for processing and analyzing aerial survey DAS data generated by the TURTLE, PHOCOENA, and CARETTA programs at the Southwest Fisheries Science Center
      R
      •
      Apache License 2.0
      •1•0•1•0•Updated Aug 29, 2025Aug 29, 2025

    • ApportionMnStocks

      Public
      Provides stock membership probabilities for U.S. West Coast humpback whales based on photo-identification data
      R
      •
      Apache License 2.0
      •1•0•0•0•Updated Aug 25, 2025Aug 25, 2025

    • FKW_Genome

      Public
      Shell
      •
      Other
      •0•0•0•0•Updated Aug 21, 2025Aug 21, 2025
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