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Research Fisheries Biologist, Northwest Fisheries Science Center, NOAA Fisheries
Affiliate faculty, SAFS, University of Washington, Seattle

My eeholmes account has mostly sandboxy repos. To find my code and teaching products, look in the GH orgs that I contribute to (table below). For time series stuff: ATSA book, ATSA course, MARSS, MARSS with Stan.

links status
Applied Time
Series Analysis
GitHub org issues
Time Series
GitHub org issues
Math Bio
Fish Forecast
Satellite Tools
Upwelling project GitHub org issues

I am also a contributor to NMFS OpenSci, Openscapes, NMFS Openscapes, NMFS R User Group and R-Govys.

Finding my stuff: You can try searching by topic:<TOPIC>+user:eeholmes&type=Repositories. Topics: R, MARSS, jupyter, earthdata, remote-sensing, upwelling, teaching.

The repositories in my eeholmes GitHub account are scientific products and are not official communication of the National Oceanic and Atmospheric Administration, or the United States Department of Commerce. The scientific results and conclusions, as well as any views or opinions expressed herein, are mine and do not necessarily reflect the views of NOAA or the Department of Commerce. In addition, this account may have forked repositories that are not my work.


  1. atsa-es/MARSS atsa-es/MARSS Public

    Multivariate Autoregressive State-Space Modeling with R

    R 51 29

  2. SardineForecast SardineForecast Public

    This has the data and bib file for the Sardine papers.

    HTML 2

  3. atsa-es/atsa-labs atsa-es/atsa-labs Public

    Labs developed for Applied Fisheries Time-series Analysis course. The link for the text is

    HTML 20 19

  4. CoV19 CoV19 Public

    Package for exploring the CoV-19 data

    HTML 1

  5. atsa-es/atsa atsa-es/atsa Public

    Applied Time Series Analysis - course website repository.

    HTML 17 10

  6. Sardine-F0 Sardine-F0 Public

    Repository for Holmes et al 2021. Improving landings forecasts using environmental covariates: a case study on the Indian oil sardine (*Sardinella longiceps*)