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DSOS/AEMON-J Virtual Workshop and Summit 2025

Here you can soon find links to all information and videos of the 2025 DSOS/AEMON-J Virtual Workshop and Summit.
All recordings are available on our OSF archive

The organisers of this event were:

Day 1: Marine Remote Sensing -- Monday 21 July 2025 14:00-18:00 UTC
14:00-14:45 UTC - Keynote: My "Google Summer of Code" Journey with IOOS and PyOBIS
Mehraz Rumman (IMARS)
In this talk, I will share highlights from my Google Summer of Code project. I will discuss the importance of caching in a Python REST API client for research purposes, as well as my contributions to improving documentation. I will also cover my work in data analysis and exploration, including machine learning, species distribution modeling (SDM), and data selection.
A live stream of the pre-recorded keynote will begin at 14:00 UTC, followed immediately by a live Question and Answer session with the speaker.
14:45-15:00 UTC - Break
15:00-17:00 UTC - Workshop: Mapping biodiversity indicator species using open data
Tylar Murray (IMARS), Mehraz Rumman (IMARS), & Matt Biddle (NOAA)
The Global Ocean Observing System (GOOS), with NOAA's U.S. Integrated Ocean Observing System (IOOS) as part of it, uses Biological and Ecological Essential Ocean Variables (BioEco EOVs) to standardize ocean observing data from communities like the Marine Biodiversity Observation Network (MBON). The GOOS Biology and BioEco Variables focus on the abundance and distribution of key aquatic organisms. Using predefined lists of species, one can query biological occurrence data from the Ocean Biodiversity Information System (OBIS) and the Global Biodiversity Information Facility (GBIF). After querying, users can analyze OBIS and GBIF occurrence data to study the abundance and distribution of these BioEco Variables. This occurrence data can then be combined with gridded and tabular environmental data served by ERDDAP to further analyze into products (e.g. species distribution models). In this workshop we will demonstrate the tools and techniques for assessing ecosystem health using this open science framework.
This workshop will be live.
The workshop materials can be found in this Github repo. Although it is not necessary to follow along during the workshop (and some code chunks will take a while to run), if you want to run the provided Jupyter notebooks, you will need to have a google account.
17:00-18:00 UTC Breakout/Working Groups Sessions
A traditional part of AEMON-J meetings in the past has been to openly discuss ideas for new, joint projects. This time in the schedule is to bring up such ideas, perhaps inspired by the workshops earlier that day, and discuss. If no such ideas are pitched, this time can also be used for small talk, networking, and other social activities.
Day 2: Image Processing -- Tuesday 22 July 2025 14:00-18:00 UTC
14:00-14:45 UTC - Keynote: Remote sensing of river bathymetry to support salmon habitat characterization in the Willamette Basin, Oregon
Brandon Overstreet (USGS)
River channel bathymetry is a building block for aquatic habitats in fluvial environments; however, bathymetric data are lacking in many river environments. This presentation describes a large-scale geospatial data collection effort underway in the Willamette Basin, Oregon which seeks to produce spatially continuous observations of river bathymetry throughout the continuum of river conditions used by ESA-listed spring-Chinook salmon – ranging from large, lowland rivers flowing through broad alluvial valleys to high gradient mountain streams flanked by steep canyon walls. Through partnerships with the USGS 3D Elevation Program and the US Army Corps of Engineers, this project has coordinated topobathymetric lidar data collection on approximately 600 km of river between 2023 and 2024, including remote, mid-order mountain streams where little to no baseline geomorphic data existed. However, environmental and financial constraints limit continuous topobathymetric lidar collection in the Willamette Basin requiring alternative remote sensing approaches to map river bathymetry. To address data gaps, we couple image processing, multispectral aerial and satellite imagery, and field survey data to expand bathymetric coverage. This presentation will highlight that river mapping through a range of environmental conditions requires geospatial data fusion using sensors deployed from aircraft, satellites, and boats.
A live stream of the pre-recorded keynote will begin at 14:00 UTC, followed immediately by a live Question and Answer session with the speaker.
14:45-15:00 UTC - Break
15:00-17:00 UTC - Workshop: Introduction to the Toolbox for River Velocimetry using Images from Aircraft (TRiVIA)
Carl Legleiter (USGS) & Paul Kinzel (USGS)
The Toolbox for River Velocimetry using Images from Aircraft (TRiVIA) provides a complete, end-to-end workflow for deriving spatially distributed velocity vectors from videos or image sequences, all within an accessible graphical user interface. TRiVIA includes modules for extracting and resampling frames, stabilizing and geo-referencing images, defining a region of interest, enhancing images, performing particle image velocimetry (PIV) with an efficient ensemble correlation algorithm, visualizing results, assessing accuracy, and exporting PIV output. In this session, the capabilities of the TRiVIA software will be illustrated through a tutorial based on an example data set collected from an uncrewed aircraft systems (UAS). The software is publicly available as a USGS scientific software product and can be obtained here: https://code.usgs.gov/wma/osd/trivia. The data to be used during the tutorial comes from a USGS ScienceBase data release. For additional information on TRiVIA, please refer to two journal articles that describe the software in greater detail (https://doi.org/10.1002/rra.4147 and https://doi.org/10.1002/rra.4333).
This workshop will be live.
17:00-18:00 UTC Breakout/Working Groups Sessions
A traditional part of AEMON-J meetings in the past has been to openly discuss ideas for new, joint projects. This time in the schedule is to bring up such ideas, perhaps inspired by the workshops earlier that day, and discuss. If no such ideas are pitched, this time can also be used for small talk, networking, and other social activities.
Day 3: Ecological Modeling -- Wednesday 23 July 2025 18:00-22:00 UTC
A brief introduction to aquatic ecosystem modelling
Nicolas Azaña Schnedler-Meyer (Technical University of Denmark)
Tobias Kuhlmann Andersen (Aarhus University)
Note: this video was part of the 2022 Hacking Limnology event. It is not part of the 2025 material, but provides an introduction to the topic of ecological modeling. It can be watched before the event to get a better grasp on the topic.

Abstract: Aquatic ecosystem models have evolved from the classical pelagic nutrient-phytoplankton- zooplankton models to increase in complexity in, among others, biogeochemical processes, food web, functional groups and behavior of modelled organisms. Also, the coupling to hydrodynamic models in 1- to 3-dimensions have deepened our understanding of the spatial dynamics of aquatic ecosystems. In this talk, we will introduce the concepts of ecosystem modelling while providing an overview of the current state-of-the-art in simulating lake ecosystem dynamics ranging from temperature and nutrients to macrophytes and fish.
18:00-18:45 UTC - Keynote: Acceleration of global lake anoxia under climate change
Lipa Nkwalale (Helmholtz Center for Environmental Research)
Lake ecosystems and biogeochemical cycles are experiencing detrimental changes with the progression of climate change. Global simulations project rising surface water temperatures and prolonged summer stratifications, but ecosystem and water quality projections are lacking. A key factor in lake ecosystem health is hypolimnion oxygen (O2) levels. We use a multi-model ensemble (three lake models driven by five climate models) to simulate thermal dynamics (2015–2099) for 73 globally representative individual lakes under three climate scenarios. We use the output variables to model O2 depletion and project future hypolimnion O2 concentrations. While trophic level generally influences anoxia risk, with oligotrophic lakes (35%) being less vulnerable than eutrophic lakes (96%) in the last decade under the pessimistic SSP5-8.5 scenario, climate-induced changes progressively drive lakes into O2 loss and corresponding habitat degradation. If climate warming cannot be halted, reducing nutrient inputs is required for sustaining healthy O2 conditions in lakes.
A live stream of the pre-recorded keynote will begin at 18:00 UTC, followed immediately by a live Question and Answer session with the speaker.
18:45-19:00 UTC - Break
19:00-21:00 UTC - Workshop: Building and Running an Aquatic Ecosystem Model Ensemble in R
Tadhg Moore (LimnoTrack)
This workshop will guide participants through the process of setting up and running an aquatic ecosystem model ensemble in R, covering data requirements, handling missing data, and implementing one-dimensional lake models. Participants will gain hands-on experience with model setup, execution, and customization for new lakes, using R-based coding.
This workshop will be live.
The workshop materials can be found in this Github repo. Please take a look at the workshop's prerequisites.
21:00-22:00 UTC Breakout/Working Groups Sessions
A traditional part of AEMON-J meetings in the past has been to openly discuss ideas for new, joint projects. This time in the schedule is to bring up such ideas, perhaps inspired by the workshops earlier that day, and discuss. If no such ideas are pitched, this time can also be used for small talk, networking, and other social activities.

Virtual Summit: Incorporating Data Science and Open Science in Aquatic Research

24 July 2025
14:00-14:15 UTC - Introduction, Welcome, and Ground Rules
14:15 - 15:15 UTC - The Surface Water Ocean Topography (SWOT) Mission
14:15-14:25 UTC Hana Thurman
Capturing hydrologic waves traveling down rivers using SWOT satellite data
14:25-14:35 UTC Ryan Riggs
Characterizing reservoir operations with satellite remote sensing
14:35-14:55 UTC Merritt Harlan
Accessing data from the Surface Water Ocean Topography (SWOT) satellite in Madagascar
14:55-15:15 UTC Live Q&A with the speakers
15:15-15:35 UTC Break
15:35-16:25 UTC - Novel Approaches for Unpacking Ecosystem Function
15:35-15:45 UTC Kelly Aho
Creating and using NEON derived data products to gain new insights into greenhouse gas emissions from streams and rivers
15:45-15:55 UTC Punwath Prum
Harmonizing Landsat TM, ETM+, OLI, and OLI2 surface reflectance data for long-term surface water quality monitoring
15:55-16:05 UTC Marina Amadori
A sub-continental scale assessment of lake-climate interactions in sub-Sahelian Africa from global remote sensing and reanalysis data
16:05-16:25 UTC Live Q&A with the speakers
16:25-16:55 UTC - Break
16:55-17:55 UTC - Career Panel: How to cultivate your brand
Nichole Barger - The Nature Conservancy
Matthew Ross - Colorado State University
Ryan McClure - The National Ecological Observatory Network
Simon Topp - Upstream Tech
17:55-18:00 UTC - Closing Remarks
25 July 2025
14:00-14:15 UTC - Introduction, Welcome, and Ground Rules
14:15 - 15:15 UTC - Open Tools for Open Science
14:15-14:25 UTC Lindsay Platt
Demystifying reproducibility with tangible steps and practical actions
14:25-14:35 UTC Chung-Yi Lin
Pywr-DRB: Advancing water availability assessment through open source modeling in the Delaware River Basin
14:35-14:45 UTC Tim Stagnitta
Development of a cloud-based workflow to automatically extract and bias-correct temperatures for inland waterbodies from Landsat 8 analysis ready datasets across the contiguous United States
14:45-14:55 UTC Tadhg Moore
Open Models, Clear Waters: Ecosystem modeling for Aotearoa New Zealand’s lakes
14:55-15:15 UTC Live Q&A with the speakers
15:15-15:35 UTC - Break
15:35-16:35 UTC - Open Data and Open Models for Open Science
15:35-15:45 UTC Athreyi Badithela
Hierarchically disentangled neural networks for stream temperature forecasting
15:45-15:55 UTC Karen Portilla
Modeling thermal stratification in Andean lakes with GLM: A climate-lake coupling approach using ENSO signals
15:55-16:05 UTC Mahtab Yaghouti
A simple approach to project and mitigate lake deoxygenation in response to future climate change
16:05-16:15 UTC Bennett McAfee
Integrating scientific knowledge and machine learning to model lake water quality with open data
16:15-16:35 UTC Live Q&A with the speakers
16:35-16:40 UTC - Closing Remarks
DSOS/AEMON-J virtual summit flyer from 2025