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DOE OSTI2022

Data used in manuscript "Quantifying Subsurface Flow and Solute Transport in a Snowmelt-recharged Hillslope with Multiyear Water Balance", submitted to Water Resources Research on 5-26-2022

Data in this package were used to calculate subsurface flow and solute (specifically dissolved nitrogen) transport in the Pumphouse Lower Montane (PLM) hillslope. These data are included in separate CSV files associated with each figure presented in the manuscript. The files describe site locations and elevations, weather data (air temperatures and precipitation), modeled evapotranspiration, time dependent groundwater elevations, calculated annual subsurface flow, hydraulic conductivity values, time trends in subsurface flow within different zones, pore water concentrations of total dissolve nitrogen (TDN), rates of TDN transport, soil water matric potentials following snowmelt, soil water contents during drainage, and evapotranspiration calculated by soil water mass balance versus by CLM4 model.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Spatial Study 2021: Sensor-Based Time Series of Surface Water Temperature, Specific Conductance, Total Dissolved Solids, pH, and Dissolved Oxygen from across Multiple Watersheds in the Yakima River Basin, Washington, USA (v3)

This dataset supports a broader study examining the drivers of spatial variability in sediment respiration rates in the Yakima River Basin. The dataset provides two-hour time series hydrological and water chemistry sensor data, manual chamber open channel respiration data, handheld sensor water chemistry data, river substrate grain size photos, general environmental context photos, and field metadata (including qualitative information on instream and river corridor characteristics) collected during the same two-week period at 47 sites within multiple rivers throughout the Yakima River Basin in Washington, USA. Grain size photos can be used to improve estimates of channel substrate D50 data. Related sample-based water chemistry data are published separately at https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1898914.This dataset is comprised of four main folders, one containing three sensor-specific subfolders and the others containing photographs. The SFA_SpatialStudy_2021_SensorData main data folder includes file-level metadata (FLMD), data dictionary (dd), installation methods, field metadata, Ultrameter water chemistry data, field data collection protocols, international generic sample number (IGSN) mapping file, and a readme file. The “Sensor_Manual_Specifications” subfolder contains pdf files from the manufacturer of each sensor with details on the sensor specifications. Each sensor subfolder (BarotrollAtm, MantaRiver, and MinidotManualChamber) contains a sensor data subfolder for timeseries data and a subfolder for plots and summary statistics. The BarotrollAtm Data subfolder contains In Situ Rugged BaroTROLL pressure and temperature data. The MantaRiver Data subfolder contains Eureka Manta+ 35B multisonde temperature, specific conductance, and pH data. The MinidotManualChamber Data subfolder contains PME MiniDOT Logger dissolved oxygen (mg/L and percent saturation) and temperature data. The folder SFA_SpatialStudy_2021_EnvironmentalContextPhotos contains environmental context photographs and videos. The folders SFA_SpatialStudy_2021_SedimentQuadratPhotos_Part1 and SFA_SpatialStudy_2021_SedimentQuadratPhotos_Part2 contain sediment quadrat photographs. All files are .csv, .pdf, .R, .jpg, .jpeg, .mp4, or .mov. This data package was originally published September 2022. It was updated January 2023 (modified files) and June 2024 (new and modified files). See the change history in data package readme for more details.We acknowledge the Yakama Nation as owners and caretakers of the lands where we collected these data. We thank the Confederated Tribes and Bands of the Yakama Nation Tribal Council and Yakama Nation Fisheries for working with us to facilitate sample collection and optimization of data usage according to their values and worldview.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Riverbank temperatures on the Selawik River, Alaska 2010-2012, and Koyukuk River, Alaska June to July 2018.

The data package includes temperature measurements from riverbanks along the Selawik and Koyukuk Rivers in northwest Alaska. The Selawik River data also includes meteorological data collected locally and the Koyukuk River includes bulk density and ice content data from the riverbanks. The Selawik River data was collected between 2010 and 2013 with meteorological data collected for the entire time period and riverbank temperatures collected in shorter time intervals between 2010 to 2012. All of the Selawik River data were collected a single river bend. The Koyukuk River temperature data was collected from late June to early July 2018 at a total of five locations on three riverbanks. Ice content measurements on the Koyukuk were made at five riverbank locations. The data collection on both rivers was done in support of studies on the influence of permafrost on riverbank erosion. The temperature data was collected to monitor the thermal conditions of the river banks both seasonally and during periods of erosion. The ice content of the banks was measured to better understand how bank erosion rates are influenced by ice in the frozen riverbanks.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Spatial Study 2022: Surface Water Samples, Cotton Strip Degradation, and Hydrologic Sensor Data across the Yakima River Basin, Washington, USA (v3)

This dataset supports a broader study examining the drivers of spatial variability in sediment respiration rates in the Yakima River Basin. The dataset provides data and photos generated from sample collection during the same one-week period at 48 sites within multiple rivers throughout the Yakima River Basin in Washington, USA. The contents include surface water geochemistry data; river substrate grain size photos; stream depth data; manual chamber open channel respiration data; and field metadata (including qualitative information on instream and river corridor characteristics). Grain size photos can be used to improve estimates of channel substrate D50 data. The dataset also includes tensile strength and photos from cotton strip field degradation experiments; five-week sensor time series temperature, dissolved oxygen, pressure, pH, specific conductance, chlorophyll A, and turbidity data; plots of the sensor data; and R scripts used to generate the plots. Samples collected during this study were labeled as “Second Spatial Study” or “SSS.” A subset of data from the SSS samples were published in the contiguous United States (CONUS)-Scale Model-Sample (CM) study data package available at https://data.ess-dive.lbl.gov/view/doi:10.15485/1923689 that presents data from across the CONUS. SSS data published in the CM data package were not included in this data package. They include dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC), total nitrogen (TN), grain size, aerobic sediment respiration, dissolved oxygen (DO), and temperature. Parent IDs and Site IDs are consistent between the SSS and CM data packages, and they can be mapped directly so data across packages can be used together. Additionally, sensor data from a similar 2021 spatial study can be found at https://data.ess-dive.lbl.gov/view/doi:10.15485/1892052 and 2021 sample data can be found at https://data.ess-dive.lbl.gov/view/doi:10.15485/1898914. The 2021 spatial study had some sites in common with this 2022 spatial study. This dataset is comprised of three photo folders and one main data folder with six subfolders. The photo folders contain photographs and videos of cotton strip retrieval and sediment quadrats. The main data folder consists of (1) file-level metadata; (2) data dictionary; (3) field metadata; (4) total suspended solids (TSS) data and cotton strip tensile strength data and averages; (5) field protocol; (6) readme; (7) methods codes; (8) international generic sample number (IGSN) mapping file; (9) sensor installation methods summary; (10) stream depth and averages; and (11) Ultrameter data and averages. The Sonar subfolder consists of Sonar time-series depth data and a processing script. The BarotrollAtm, DepthHOBO, MantaRiver, miniDOT, and miniDOTManualChamber subfolders contain time-series data, plots, and summary files. All files are .csv, .pdf, .txt, .R, .Rmd, .jpg, .jpeg, .AVI, .mp4, or .mov. The data package was originally published in April 2023. It was updated in August 2023 (v2; modified files) and September 2024 (v3; modified files). See the change history section in the readme for details. We acknowledge the Yakama Nation as owners and caretakers of the lands where we collected these data. We thank the Confederated Tribes and Bands of the Yakama Nation Tribal Council and Yakama Nation Fisheries for working with us to facilitate sample collection and optimization of data usage according to their values and worldview.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Meteorological and hydrological parameters for 17 locations of meteorological stations of the East River Watershed

The Data Package includes a set of csv files of input meteorological parameters for locations of 17 meteorological stations within the East River watershed. These meteorological datasets were downloaded from the (1) PRISM database--monthly precipitation, air temperature (minimum, mean, and maximum), vapor pressure deficit (minimum and maximum), and dewpoint temperature, and (2) NCEP/NCAR Reanalysis database – wind database. The datasets were used for calculations of the Potential Evapotranspiration (ETo), Actual Evapotranspiration (ET), Standard Precipitation Index (SPI) , Standard Evapotranspiration-Precipitation Index (SPEI) for the period from 1966 to 2021. The main research questions addressed are: the evaluation of the long-term temporal trends of climatic parameters, hierarchical clustering, and areal mapping/zonation of the East River watershed. Calculations were conducted in the Rstudio environment. The dataset additionally includes a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata; and a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type.The input datasets were downloaded from (a) PRISM database (the Northwest Alliance for Computational Science and Engineering at the Oregon State University), and (b) NCEP/NCAR Reanalysis database.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Data, scripts, and figures associated with a manuscript studying impact of climate and topography on post-fire vegetation recovery.

This data package is associated with the publication “Impact of Topography and Climate on Post-fire Vegetation Recovery Across Different Burn Severity and Land Cover Types through Machine Learning” submitted to Remote Sensing of Environment (Zahura et al. 2023). In this research, a machine learning algorithm, random forest (RF), was utilized to examine the impact of climate and topography on post-fire vegetation recovery. We used enhanced vegetation index (EVI) to examine varying burn severity and land cover types. The data package includes the input files for RF model training, outputs from model predictions and analysis, and python scripts to run the model, analyze the results to understand model performance and interpretability, and plot manuscript figures. This data package contains three folders (Data, Scripts, and Figures), a file-level metadata (FLMD) csv, and a data dictionary (dd) csv. Please see Postfire_recovery_flmd.csv for a list of all files contained in this data package and descriptions for each. The data dictionary (Postfire_recovery_dd.csv) describes the csv column headers. The “Data” folder provides all the inputs and outputs to train the RF model, evaluate performance, and interpret predictions. The “Scripts” folder contains python scripts and jupyter notebooks for model training and result analysis. The “Figures” folder includes the figures used in the manuscript in “.png” and “.jpg” format.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Geophysical and Environmental Monitoring Data, and Subsurface Flow Modelling Results for Chicken Bone Meadow, Mt. Snodgrass, Crested Butte, CO

This dataset includes geoelectrical monitoring data acquired between October 2021 and November 2022, soil moisture and temperature data, groundwater data obtained from borehole SNIB covering the period from June 2021 to September 2022, and hydrological modelling results. The data were acquired to investigate how variations in bedrock type and topography, and vegetation cover control subsurface flow dynamics. To provide insights into the subsurface flow dynamics and their controls, a monitoring transect was installed at the Chicken Bone Meadow, Mt. Snodgrass, Crested Butte, CO, measuring the spatio-temporal variations of soil moisture, soil and snow temperature, subsurface electrical resistivity variations, and groundwater dynamics. Field data are organized in a folder structure, with Electrical Resistivity Tomography (ERT) data being provided as one file per measurement, and data of the soil moisture and temperature sensors being provided as text files covering the entire monitoring period. The ‘Locations.csv’ file contains the location of all sensors, given in NAD83 – UTM Zone 13N. ERT monitoring data has been processed to filter data based on reciprocal errors (data with errors > 30% were removed), a linear error model was fitted to each survey, and to ensure a constant set of measurements for time-lapse inversion, filtered data were interpolated and assigned a 100% measurement error. Soil moisture and temperature data were acquired at 15 min intervals, and averaged to provide 1h data. Weather data and borehole data (groundwater depth, conductivity and temperature) were acquired at 30 min intervals, and are provided as daily measurements; all measurements are averaged, except of precipitation values, which are given as daily accumulation. The hydrological model was set up along the ERT monitoring transect, and net infiltration was used as surface boundary condition and derived from the weather data. Four different results are provided, (1) results for a parameterization using hydraulic permeability and porosity as derived from the ERT data through petrophysical relationships, and (2) three simplified model results, using 1 to 3 geological layers above the bedrock. Modelling was performed using PFLOTRAN, and for each model the PFLOTRAN input files are provided. The result files include weekly hydrological modelling results (e.g., saturation, velocities, pressures), as well as the model parameterization. The dataset additionally includes a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata; and a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Earth System Model Simulations of Ameriflux sites using dynamic roots and dynamic leaf to root allocation

This data package contains point-scale Earth System Model simulations run with DOE's E3SM Model. The package includes four sets of simulations, one set of simulations run in the default configuration, a second set of simulations run with the dynamic root module enabled, the third set with dynamic leaf to fine root allocation, and the fourth with the combination of dynamic roots and dynamic allocation. These simulations were run in point mode a Ameriflux sites, US-MMS, US-Moz, US-Syv, and US-NR1. These datasets can be used to assess the impact that dynamic roots have on Land Surface fluxes such as carbon and water. The simulations were run with atmospheric forcing from the Global Soil Wetness Project. We provide specifically here Gross Primary Production, Transpiration, relative root fraction per soil layer as well as Air Temperature, Precipitation and all the parameterizations used for the simulations. Our purpose for generating and analyzing these simulations was to assess the role that root dynamics and foraging for water has in the recovery timescale of ecosystems following climate perturbation. All data provided are in the "netcdf" format using standard CF-1 (Climate and Forecast) Convention. The data are all machine readable using various software platforms including Matlab, NCO, Panoply and R.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Remote Sensing and GIS data at 1km-grid over Chesapeake Bay used in “He et al. 2024, Effects of spatial variability in vegetation phenology, climate, landcover, biodiversity, topography, and soil property on soil respiration across a coastal ecosystem”

The package contains the data layers used in “He et al. 2024, Effects of spatial variability in vegetation phenology, climate, landcover, biodiversity, topography, and soil property on soil respiration across a coastal ecosystem”. The study aims to use multi-source remote sensing and GIS datasets to investigate the spatial heterogeneity and identify spatial zones with similar environmental characteristics and understand the primary driving factors affecting soil respiration within sub-ecosystems of the coastal ecosystem. We employed unsupervised hierarchical clustering analysis to identify spatial regions with distinct environmental characteristics, then determined the main driving factors using Random Forest regression and SHapley Additive exPlanations (SHAP). Spatial data layers include soil respiration, kernel Normalized Difference Vegetation Index (kNDVI) computed from Harmonized Landsat 8 and Sentinel-2 time series, climate variables from the Daymet dataset, land cover, biodiversity, topographical metrics, soil property, and tidal elevation.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

CROCUS Weather Data at Northeastern Illinois University Rooftop

This dataset is from the Department of Energy Office of Science funded project, Community Research on Urban and Climate Science (CROCUS) (https://crocus-urban.org/). Vaisala WXT sensor is an all-in-one weather instrument that provides 6 of the most important weather parameters: barometric pressure, temperature, relative humidity, rainfall, wind speed and direction. Temperature, pressure, relative humidity, and rainfall are sampled at 1 second frequency, while wind speed/direction is measured at ten per second (10Hz) frequency. These measurements are useful for looking at characterizing local weather, identifying unique weather events, and studying local turbulence, especially given the high temporal resolution of the wind measurements.Datasets are stored in the netCDF data format, and we we encourage users to make use the associated toolkits available from Unidata (https://www.unidata.ucar.edu/software/netcdf/), Project Pythia (https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html), and our “Instrument Cookbooks” (https://crocus-urban.github.io/instrument-cookbooks) for more information on how to process the metadata-rich datasets.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

CROCUS Weather Data at Chicago State University Prairie Site

Vaisala WXT sensor is an all-in-one weather instrument that provides 6 of the most important weather parameters: barometric pressure, temperature, relative humidity, rainfall, wind speed and direction. Temperature, pressure, relative humidity, and rainfall are sampled at 1 second frequency, while wind speed/direction is measured at ten per second (10Hz) frequency. These measurements are useful for looking at characterizing local weather, identifying unique weather events, and studying local turbulence, especially given the high temporal resolution of the wind measurements. These measurements are collected at Chicago State University (CSU) at a prarie site on campus in Chicago, Illinois. Data is available in the netCDF data format, we encourage data users review documentation through Project Pythia to understand how to work with netCDF data https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html. The data is aggregated into daily frequency to make it easier to process multiple days, and compress the higher-resolution fields. Each file contains one day's worth of data (24 hours, starting at 0000 UTC). File naming convention includes the project (CROCUS), location (CSU), data level (raw, a1), date (year, month, day), and hour (0000).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

CROCUS Weather Data at Argonne National Laboratory Prairie Site

Vaisala WXT sensor is an all-in-one weather instrument that provides 6 of the most important weather parameters: barometric pressure, temperature, relative humidity, rainfall, wind speed and direction. Temperature, pressure, relative humidity, and rainfall are sampled at 1 second frequency, while wind speed/direction is measured at ten per second (10Hz) frequency. These measurements are useful for looking at characterizing local weather, identifying unique weather events, and studying local turbulence, especially given the high temporal resolution of the wind measurements. These measurements are collected at the Argonne Testbed for Multiscale Observational Science (ATMOS), a prairie field site at Argonne National Laboratory in Lemont, Illinois. Data is available in the netCDF data format, we encourage data users review documentation through Project Pythia to understand how to work with netCDF data https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html. The data is aggregated into daily frequency to make it easier to process multiple days, and compress the higher-resolution fields. Each file contains one day's worth of data (24 hours, starting at 0000 UTC). File naming convention includes the project (CROCUS), location (atmos), data level (raw, a1), date (year, month, day), and hour (0000).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

CROCUS Weather Data at University of Illinois - Chicago Tower

Vaisala WXT sensor is an all-in-one weather instrument that provides 6 of the most important weather parameters: barometric pressure, temperature, relative humidity, rainfall, wind speed and direction. Temperature, pressure, relative humidity, and rainfall are sampled at 1 second frequency, while wind speed/direction is measured at ten per second (10Hz) frequency. These measurements are useful for looking at characterizing local weather, identifying unique weather events, and studying local turbulence, especially given the high temporal resolution of the wind measurements. These measurements are collected at the University of Illinois in Chicago, Illinois, on the meteorological tower near the greenhouse on campus. Data is available in the netCDF data format, we encourage data users review documentation through Project Pythia to understand how to work with netCDF data https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html. File naming convention includes the project (CROCUS), location (UIC), data level (raw, a1), date (year, month, day), and hour (0000).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Integrated Hourly Meteorological Database of 20 Meteorological Stations (1981-2022) for Watershed Function SFA Hydrological Modeling

This dataset contains (a) a script “R_met_integrated_for_modeling.R”, and (b) associated input CSV files: 3 CSV files per location to create a 5-variable integrated meteorological dataset file (air temperature, precipitation, wind speed, relative humidity, and solar radiation) for 19 meteorological stations and 1 location within Trail Creek from the modeling team within the East River Community Observatory as part of the Watershed Function Scientific Focus Area (SFA). As meteorological forcings varied across the watershed, a high-frequency database is needed to ensure consistency in the data analysis and modeling. We evaluated several data sources, including gridded meteorological products and field data from meteorological stations. We determined that our modeling efforts required multiple data sources to meet all their needs. As output, this dataset contains (c) a single CSV data file (*_1981-2022.csv) for each location (20 CSV output files total) containing hourly time series data for 1981 to 2022 and (d) five PNG files of time series and density plots for each variable per location (100 PNG files). Detailed location metadata is contained within the Integrated_Met_Database_Locations.csv file for each point location included within this dataset, obtained from Varadharajan et al., 2023 doi:10.15485/1660962. This dataset also includes (e) a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata and (f) a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type. Review the (g) ReadMe_Integrated_Met_Database.pdf file for additional details on the script, methods, and structure of the dataset.The script integrates Northwest Alliance for Computational Science and Engineering’s PRISM gridded data product, National Oceanic and Atmospheric Administration’s NCEP-NCAR Reanalysis 1 gridded data product (through the `RCNEP` R package, Kemp et al., doi:10.32614/CRAN.package.RNCEP), and analytical-based calculations. Further, this script downscales the input data into hourly frequency, which is necessary for the modeling efforts.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Shrub Expansion Simulations at Trail Valley Creek Tundra site using E3SM Land Model (ELM) Arctic-focused Version

The warming of the Arctic is causing substantial compositional, structural, and functional changes in tundra vegetation including shrub and densification in parts of the Arctic. Assessing the impact of these changes in vegetation composition on the Arctic’s carbon and energy budgets is important to constrain projected local and global surface-atmosphere exchanges. We conduct a sensitivity analysis of the projected surface energy fluxes, soil carbon pools, and carbon dioxide fluxes (net ecosystem exchange, gross primary production, and ecosystem respiration) between present day and 2100 to different shrub expansion rates and air temperature increases under future emission scenarios (intermediate – RCP4.5, and high – RCP8.5) using the Arctic-focused version of the Energy Exascale Earth System Model (E3SM) Land Model (ELM). We focus on Trail Valley Creek (TVC), a mineral upland tundra site located in the western Canadian Arctic, which is experiencing tall shrub densification and expansion. In this study, we run TVC under two different warming scenarios RCP4.5 and RCP 8.5 and simulate different shrubification rates projected until year 2100. In this repository, we include all the forcing, input, parameters, and output data corresponding to all the simulations performed. flmd.csv includes a detailed description of the datasets files.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

CROCUS 3-D wind data from Argonne Deployable Mast during Urban Canyon IOP July 2024

During the Community Research on Climate and Urban Science (CROCUS) Urban Integrated Field Laboratory (UIFL) project, led by Argonne National Laboratory, this dataset was collected by METEK uSonic-3 Class A MP sonic anemometer at 10 meter height of the Argonne Deployable Mast (ADM) from July 26 to July 28, 2024, .As part of the CROCUS 2024 Urban Canyon Intensive Observation Period (IOP), 3-D sonic anemometer on the ADM was set up to provide continuous measurements of wind and temperature in Chicago during July 2024. These measurements cover winds in X-, Y- and Z- direction and sonic temperature at 30-Hz resolution. The data are formatted as NetCDF (.nc) files, making them easily accessible using common software such as MATLAB, R, and Python.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Data and scripts from: “Denoising autoencoder for reconstructing sensor observation data and predicting evapotranspiration: noisy and missing values repair and uncertainty quantification”

This data package includes data and scripts from the manuscript “Denoising autoencoder for reconstructing sensor observation data and predicting evapotranspiration: noisy and missing values repair and uncertainty quantification”.The study addressed common challenges faced in environmental sensing and modeling, including uncertain input data, missing sensor observations, and high-dimensional datasets with interrelated but redundant variables. Point-scaled meteorological and soil sensor observations were perturbed with noises and missing values, and denoising autoencoder (DAE) neural networks were developed to reconstruct the perturbed data and further predict evapotranspiration. This study concluded that (1) the reconstruction quality of each variable depends on its cross-correlation and alignment to the underlying data structure, (2) uncertainties from the models were overall stronger than those from the data corruption, and (3) there was a tradeoff between reducing bias and reducing variance when evaluating the uncertainty of the machine learning models.This package includes:(1) Four ipython scripts (.ipynb): “DAE_train.ipynb” trains and evaluates DAE neural networks, “DAE_predict.ipynb” makes predictions from the trained DAE models, “ET_train.ipynb” trains and evaluates ET prediction neural networks, and “ET_predict.ipynb” makes predictions from trained ET models.(2) One python file (.py): “methods.py” includes all user-defined functions and python codes used in the ipython scripts.(3) A “sub_models” folder that includes five trained DAE neural networks (in pytorch format, .pt), which could be used to ingest input data before being fed to the downstream ET models in ‘ET_train.ipynb” or ‘ET_predict.ipynb’.(4) Two data files (.csv). Daily meteorological, vegetation, and soil data is in “df_data.csv”, where “df_meta.csv” contains the location and time information of “df_data.csv”. Each row (index) in “df_meta.csv” corresponds to each row in “df_data.csv”. These data files are formatted to follow the data structure requirements and be directly used in the ipython scripts, and they have been shuffled chronologically to train machine learning models. The meteorological and soil data was collected using point sensors between 2019-2023 at(4.a) Three shrub-dominated field sites in East River, Colorado (named “ph1”, “ph2” and “sg5” in “df_meta.csv”, where “ph1” and “ph2” were located at PumpHouse Hillslopes, and “sg5” was at Snodgrass Mountain meadow) and(4.b) One outdoor, mesoscale, and herbaceous-dominated experiment in Berkeley, California (named “tb” in “df_meta.csv”, short for Smartsoils Testbed at Lawrence Berkeley National Lab).- See "df_data_dd.csv" and "df_meta_dd.csv" for variable descriptions and the Methods section for additional data processing steps. See "flmd.csv" and "README.txt" for brief file descriptions.- All ipython scripts and python files are written in and require PYTHON language software.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Data from: “Bald Cypress (Taxodium distichum) Knees Are Methane Sources Controlled by Geomorphology, Climate, and Hydrologic Extremes”

This dataset is associated with the manuscript “Bald Cypress (Taxodium distichum) Knees Are Methane Sources Controlled by Geomorphology, Climate, and Hydrologic Extremes”. Bald cypress “knees” (aboveground woody roots) have been shown to contribute to wetland methane (CH4) efflux, with large variation within and between studies. To explain this variation, we investigated spatial (i.e., across knee surface, within sites, between sites) and temporal dynamics of CH4 fluxes from knees. Methane fluxes were collected from September 2022 to August 2024 at three locations in western Kentucky, USA, within the Mississippi Alluvial Valley: a main channel (semi-permanently flooded), side channel (seasonally flooded), and reservoir edge (artificially flooded). Knee CH4 fluxes (“Ross_et_al_Knee_Flux_Data.csv”) were measured from multiple heights on knees (20, 40, and 60 cm) of various sizes (knee straight height ranged from 24 to 93 cm) using a LiCOR LI-7810 CH4/CO2/H2O Trace Gas Analyzer. The dataset also includes environmental variables collected with each knee measurement, including water level adjusted for knee-to-knee elevational differences, subsurface and air temperature, and humidity. Soil CH4 fluxes (“Ross_et_al_Soil_Flux_Data.csv”) were also collected adjacent to knees (starting in April 2023) when water levels didn’t overtop soil collars, using a LiCOR Smart Chamber and calculated in SoilFluxPro software. The soil flux dataset includes associated variables collected by the Smart Chamber. Three separate files (“*_Water_Level.csv”) are included for water level and subsurface temperature data collected at each site using HOBO U20L barometric pressure loggers. Each file type (knee flux, soil flux, water level) has an associated data dictionary (“*_dd.csv”). For specifics on methodology used and calculations, see the associated manuscript. The R script includes code used for figures and analyses reported in the manuscript.

54 ENVIRONMENTAL SCIENCES↗