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@CefasRepRes Centre for Environment Fisheries and Aquaculture Science (Cefas)

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    61 repositories

    • welsh_gov_fisheries_toolbox

      Public
      Documentation and code related to the toolbox developed to support welsh goverment fisheries data management
      R
      •1•1•1•0•Updated Dec 20, 2024Dec 20, 2024

    • AvoidingConfusion

      Public
      R and stan scripts to produce the outputs and figures of Spence et al. (2024) "Avoiding Confusion: Modelling Image Identification Surveys with Classification Errors", Methods in Ecology and Evolution.
      R
      •
      Other
      •0•0•0•0•Updated Dec 10, 2024Dec 10, 2024

    • aquanet

      Public
      R package containing the functions required to run AquaNet-Mod (The Aquaculture Disease Network Model).
      r-package
      R
      •
      Other
      •0•0•0•0•Updated Dec 10, 2024Dec 10, 2024

    • cefasSpatialHubPackage

      Public
      An R Package to access Cefas Spatial Hub resources
      R
      •0•0•0•0•Updated Nov 14, 2024Nov 14, 2024

    • C8389-NIS-surveillance-simulator

      Public
      Simulator to determine detection time of NIS introduced at seed site with different surveillance efforts (assumed no spread).
      R
      •0•0•0•0•Updated Nov 1, 2024Nov 1, 2024

    • ICES-VMS-and-Logbook-Data-Call_Cefas

      Public
      repository for repsonse to ICES VMS& LOGBOOK DATACALL adapated to Cefas requirements
      R
      •
      GNU General Public License v3.0
      •5•0•12•0•Updated Oct 30, 2024Oct 30, 2024

    • BayOfBengal_ParticleTracking_paper

      Public
      Code used to run and post-process OceanParcels particle tracking simulations in the Bay of Bengal for a paper submitted to Ocean Science.
      Jupyter Notebook
      •0•0•0•0•Updated Oct 29, 2024Oct 29, 2024

    • aquanet-mod

      Public
      R scripts for AquaNet-Mod (The Aquaculture Disease Network Model).
      R
      •
      Other
      •0•0•2•0•Updated Oct 23, 2024Oct 23, 2024

    • shipwreck-oil-detection-colab

      Public
      Google Colab tool for detecting oil spills from historical shipwrecks
      Jupyter Notebook
      •
      MIT License
      •0•0•3•0•Updated Sep 17, 2024Sep 17, 2024

    • MixME

      Public
      R package for Mixed-fishery Multi-stock Evaluation
      R
      •0•0•2•0•Updated Aug 28, 2024Aug 28, 2024

    • cefasRBR

      Public
      R package for working with RBR Profiling instruments
      R
      •
      MIT License
      •0•0•0•0•Updated Aug 22, 2024Aug 22, 2024

    • EcoEnsemble

      Public
      R package for implementing the ensemble framework for combining ecosystem models.
      C++
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Aug 20, 2024Aug 20, 2024

    • CO_AMM7

      Public
      AMM7 configuration for testing various vertical coordinate options
      Fortran
      •2•0•0•0•Updated Aug 6, 2024Aug 6, 2024

    • coco_labeller

      Public
      HTML
      •
      MIT License
      •1•0•8•0•Updated Aug 1, 2024Aug 1, 2024

    • pySBC

      Public
      Module for createing NEMO surface boundary conditions
      Python
      •2•0•0•0•Updated Aug 1, 2024Aug 1, 2024

    • pikeperch-homerange-salinity

      Public
      TeX
      •
      Other
      •0•0•0•0•Updated Jul 30, 2024Jul 30, 2024

    • NEMO4.0-FABM

      Public
      Fortran
      •
      Other
      •1•1•2•0•Updated Jun 25, 2024Jun 25, 2024

    • Git_Training

      Public
      ssmod
      HTML
      •0•3•2•0•Updated Jun 3, 2024Jun 3, 2024

    • ices_vms_logbook_datacall

      Public
      Code to produce the datasets required for the annual ICES VMS/Logbook datacall
      R
      •0•1•2•1•Updated May 31, 2024May 31, 2024

    • OCCP_GIS_Training_R_Link_ArcGIS

      Public
      A public repository storing the code and outputs from the code linking R to ArcGIS.
      HTML
      •0•0•0•0•Updated May 6, 2024May 6, 2024

    • one-food-risk-tool

      Public
      HTML
      •
      Other
      •0•0•0•0•Updated Apr 17, 2024Apr 17, 2024

    • CO_AMM15

      Public
      Coastal Ocean (CO) configuration of the Atlantic Margin Model (1.5 km resolution)
      Fortran
      •1•0•0•0•Updated Apr 4, 2024Apr 4, 2024

    • Cefas.MDR.OgrEnvironmentalDataRetrieval

      Public
      OGC Environment Data Retrieval API
      C#
      •0•1•0•0•Updated Feb 1, 2024Feb 1, 2024

    • plankton-dsg-challenge

      Public
      Notebooks, extended challenge description and metadata for the December 2021 Data Study Group with CEFAS
      Jupyter Notebook
      •
      Apache License 2.0
      •11•0•0•0•Updated Jan 10, 2024Jan 10, 2024

    • msy

      Public
      A collection of methods to estimate equilibrium reference points for fish stocks
      R
      •
      GNU General Public License v2.0
      •12•0•0•0•Updated Dec 21, 2023Dec 21, 2023

    • 324261-candidate-exercise

      Public
      Simple recruitment exercise
      1•0•0•0•Updated Dec 18, 2023Dec 18, 2023

    • MixUncertainty

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 12, 2023Dec 12, 2023

    • salmon-rod-exploitation

      Public
      Article and analysis code for ICES JMS paper _Estimation of returning Atlantic salmon stock from rod exploitation rate for principal salmon rivers in England & Wales_
      R
      •
      Other
      •0•0•0•0•Updated Oct 16, 2023Oct 16, 2023

    • cefasMOS

      Public
      R
      •0•0•0•0•Updated Sep 20, 2023Sep 20, 2023

    • h2020-smartfish

      Public
      This repo holds the manuscript and analysis code for a lights selectivity experiment done as part of the Horizon 2020 SMARTFISH project.
      HTML
      •
      Other
      •0•0•0•0•Updated Sep 8, 2023Sep 8, 2023