Code

Docker Images

Holmes, E., Boettiger, C., Panda, Y., & López, L. (2025, April 28). nmfs-opensci/py-rocket-base: py-rocket-base v3.0.7 [Software]. Zenodo. https://doi.org/10.5281/zenodo.15293190 A containerized base environment providing Python, R, and geospatial tooling for reproducible scientific computing in Jupyter, RStudio, and VS Code.

Multivariate time-series analysis

Looking for R packages for time-series analysis (MARSS, atsar, …)? Head to our ATSA-ES page. Packages, course webpage and Applied Time-Series Analysis book is there.

Most of my code is my GitHub page and organizations. My main GH organizations are:

• Time series analysis atsa-es
• Some packages related to salmonid viability report work nwfsc-math-bio
• Working with remote sensing data ocean-satellite-tools
• R Workflow RVerse-Tutorials
• Catch forecasting Fish-Forecast

Other random stuff is on my GitHub page. However, if you are looking for time-series analysis or hierarchical modeling code, then you should look at my collegues’ GitHub repositories and project pages.

Other code

fbRanks

Fitting huge poission regression models using glmnet.

LAMBDA

A matlab package for fitting MAR(1) models.

MAR1

An R package for fitting MAR(1) models.

FishBox and EcologyBox

Code repositories with a variety of older projects. We have switched over to GitHub since 2012 or so. We developed the code base that runs the repository itself as part of the Iugo-Cafe project in the 2000s.

iugo-cafe

Iugo-Cafe was an early project on development of fluid content managers for science purposes.