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qselmer/README.md

Marine Quantitative Ecologist & Fisheries Scientist

Google Scholar ORCID Clarivate LinkedIn

I am a quantitative marine ecologist and fisheries scientist working at the intersection of ecological modelling, marine data science and decision science. I develop statistical and computational approaches for pelagic fish and marine ecosystems, integrating stock assessment, spatio-temporal modelling, population and community dynamics, life-history processes, environmental variability and multidimensional indicators. My research focuses on understanding population responses to natural and anthropogenic pressures, quantifying uncertainty, and translating ecological information into management through stock assessment, management strategy evaluation (MSE), ecosystem-based fisheries science and reproducible analytical workflows. I am particularly interested in highly variable marine systems and in developing transferable methods that connect ecological theory, large and heterogeneous marine datasets, and operational fisheries management.

Public ORCID research outputs by scholarly-output type Research metrics from ORCID and OpenAlex

Research outputs are synchronized from ORCID/Crossref; bibliometric indicators are obtained from OpenAlex.

Research focus

  • 🐟 Quantitative marine ecology, fisheries science and stock assessment.
  • 📈 Population and community dynamics, recruitment, growth and life-history variation.
  • 🗺️ Spatio-temporal modelling, statistical ecology and marine ecosystem indicators.
  • 🌊 Pelagic fish and pelagic ecosystem dynamics, particularly in the Humboldt Current and Eastern Boundary Upwelling Systems.
  • 🧭 Multivariate stock-state diagnostics, thresholds, regime shifts and pressure–state relationships.
  • 🧩 Integration of biological, fishery and environmental evidence for adaptive management advice.
  • 💻 Reproducible scientific workflows in R, Python, C++, Julia, Git and GitHub.

For research collaboration or professional contact: qselmers@gmail.com · qselmer.github.io

Scientific computing

R Python C++ Julia JavaScript TMB Stan

Jupyter Quarto LaTeX Git GitHub Actions

Primary programming languages across active public original repositories Active original repositories by repository type, including public and private repositories

Primary Languages uses active public original repositories. Repository Types includes active public and private original repositories visible to the profile automation; forks and archived repositories are excluded.

Scientific computing & reproducible research

Active original research repositories are organized by their primary scientific or computational function. Public and private repositories are both listed below; visibility is shown in each table with 🔓 or 🔒. Forks and archived repositories are excluded from the active portfolio.

Packages (5)

RepositoryDescriptionVisibilityMain language
fish-byteHTML, CSS y JavaScript.🔓CSS
FisheryClose-🔓R
oceancube-🔓R
postHub-🔓R
seasignals-🔓R

Methods & workflows (1)

RepositoryDescriptionVisibilityMain language
oceHCS-environmental-data-workflowReproducible workflow for acquisition, QC, harmonization, derivation, cataloguing, and reuse of environmental data across the Humboldt Current System.🔓R

Apps & dashboards (5)

RepositoryDescriptionVisibilityMain language
humboldt-ocean-watchAI-assisted daily sea surface temperature and thermal anomaly monitoring for the Niño 1+2 region.🔓Python
pelagicPER-observatory-appPrivate repository🔒-
pelagicPER-outlook-appPrivate repository🔒-
pelagicPER-season-benchmark-appPrivate repository🔒-
pelagicPER-season-monitor-appPrivate repository🔒-

Papers (5)

RepositoryDescriptionVisibilityMain language
pelagicPER-availability-risk-paper-🔓-
fishcore-paperPrivate repository🔒-
fishstocks-misspecification-ml-paperPrivate repository🔒-
pelagicPER-fishery-reorganization-paperPrivate repository🔒-
pelagicPER-season-benchmark-paperPrivate repository🔒-

Courses & training (6)

RepositoryDescriptionVisibilityMain language
ctd-C-plus-plus-🔓-
git-github-trainingTeaching materials, exercises and reusable resources for Git and GitHub🔓R
R-LabCore-🔓-
skills-introduction-to-githubMy clone repository🔓-
TMB-LabCoreTMB-LabCore: A space dedicated to practicing, exploring, and developing skills in TMB programming.🔓TeX
training_code_Pythontraining R, python, julia, C++🔓Jupyter Notebook

Templates (3)

RepositoryDescriptionVisibilityMain language
.template-mseReusable structure for reproducible fisheries Management Strategy Evaluation projects.🔓Python
.template-trainingReusable template for teaching, workshops and scientific training.🔓Python
template_summaryPDF-🔓R

Websites & infrastructure (2)

RepositoryDescriptionVisibilityMain language
qselmer-🔓Python
qselmer.github.ioFisheries scientist & marine quantitative ecologist | Stock assessment, spatio-temporal analytics, reproducible science🔓Python

Institutional & collaborative work

Selected repositories owned by research organizations are shown separately from my personal repository counts.

RepositoryOrganizationRoleContributionVisibilityType
ancNC-mse-workflowDIPEL-IMARPECreator & developerCreated the repository and developed the reproducible MSE workflow for the north-central stock of Peruvian anchovy.🔓Methods & workflows

Popular repositories Loading

  1. qselmer.github.io qselmer.github.io Public template

    Fisheries scientist & marine quantitative ecologist | Stock assessment, spatio-temporal analytics, reproducible science

    Python 2

  2. mooc-machine-learning-weather-climate mooc-machine-learning-weather-climate Public

    Forked from ecmwf-training/2023-ml-mooc-weather-climate

    Jupyter Notebook 1

  3. ML4Oceans2022 ML4Oceans2022 Public

    Forked from jiho/ML4Oceans2022

    Slides and practicals for the ML4Oceans Summer School at Sorbonne Université, jointly supported by SCAI and the Institut de l'Océan

    Jupyter Notebook 1

  4. Fishery-GPEDM Fishery-GPEDM Public

    Forked from TsaiCH/Fishery-GPEDM

    R and TMB examples for Fishery-centric Gaussian Process Empirical Dynamics Modelling

    R 1

  5. FishLife FishLife Public

    Forked from James-Thorson-NOAA/FishLife

    Estimate fish traits for all marine fish species globally

    R

  6. RFishBC RFishBC Public

    Forked from fishR-Core-Team/RFishBC

    This package helps fisheries scientists collect growth data from calcified structures and back-calculate estimated lengths at previous ages. The package is intended to replace much of the functiona…

    R