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@SWFSC Southwest Fisheries Science Center

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    56 repositories

    • glider-lab

      Public
      NOAA Fisheries ESD glider lab
      glidersswfsc-esd
      glidersswfsc-esd
      HTML
      •
      Creative Commons Zero v1.0 Universal
      •0•3•59•0•Updated May 5, 2026May 5, 2026

    • esdglider

      Public
      Utility functions for ESD glider processing
      glidersswfsc-esd
      glidersswfsc-esd
      Jupyter Notebook
      •
      Apache License 2.0
      •1•3•6•0•Updated May 5, 2026May 5, 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•4•3•0•Updated May 4, 2026May 4, 2026

    • atmData

      Public
      R
      •
      Creative Commons Zero v1.0 Universal
      •0•1•2•0•Updated May 4, 2026May 4, 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•3•10•0•Updated May 4, 2026May 4, 2026

    • MSI-data

      Public
      R
      •0•1•1•0•Updated Apr 29, 2026Apr 29, 2026

    • standard-glider-files

      Public
      Standard files that are put on all gliders before deployment
      glidersswfsc-esd
      glidersswfsc-esd
      Wolfram Language
      •0•0•0•0•Updated Apr 29, 2026Apr 29, 2026

    • glider-lab-manual

      Public
      Quarto website for ESD glider lab
      glidersswfsc-esd
      glidersswfsc-esd
      Lua
      •
      Creative Commons Zero v1.0 Universal
      •1•2•3•0•Updated Apr 27, 2026Apr 27, 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

    • 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.
      0•0•0•0•Updated Apr 13, 2026Apr 13, 2026

    • viame-web-noaa-gcp

      Public
      Deploy an instance of VIAME-Web in GCP in the NOAA Fisheries Cloud
      Shell
      •
      Other
      •0•5•6•0•Updated Apr 7, 2026Apr 7, 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

    • MSI-report

      Public
      R
      •
      Apache License 2.0
      •0•0•0•0•Updated Mar 6, 2026Mar 6, 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 Feb 6, 2026Feb 6, 2026

    • SDMforecastr

      Public
      Species Distribution Model Forecasts in R
      R
      •
      Other
      •1•0•0•0•Updated Jan 16, 2026Jan 16, 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

    • CMRutils

      Public
      Misc tools for mark-recapture analysis
      R
      •
      Apache License 2.0
      •1•0•0•0•Updated Aug 19, 2025Aug 19, 2025

    • swfscDAS

      Public
      R package for processing and analyzing DAS data
      R
      •
      Apache License 2.0
      •0•4•4•0•Updated Aug 11, 2025Aug 11, 2025

    • ObsCovgTools

      Public
      Estimates minimum fisheries observer coverage required to achieve a specific objective
      R
      •
      Other
      •2•0•0•0•Updated Jul 23, 2025Jul 23, 2025

    • sardine_otolith_sampling_analysis

      Public
      This repository contains the data and analysis used in the manuscript on post-survey otolith subsampling strategies on Pacific Sardine by Schwartzkopf et al.
      R
      •0•0•0•0•Updated Jul 18, 2025Jul 18, 2025

    • banter

      Public
      banter is a package for creating hierarchical acoustic event classifiers out of multiple call type detectors.
      machine-learningcranr
      machine-learningcranrrandom-forestnoaasupervised-learningclassificationr-packagewhalesacoustics
      HTML
      •1•9•1•0•Updated Jun 17, 2025Jun 17, 2025

    • swfscMisc

      Public
      Collection of utility, analytical, mapping, and plotting functions used at the Southwest Fisheries Science Center.
      R
      •1•0•0•0•Updated Jun 9, 2025Jun 9, 2025
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