Data Package Metadata   View Summary

Concentration of nutrients in water samples collected from the Upper Clark Fork River (Montana, USA) during water year 2019 (1 Oct 2018 - 30 Sept 2019)

General Information
Data Package:
Local Identifier:edi.968.3
Title:Concentration of nutrients in water samples collected from the Upper Clark Fork River (Montana, USA) during water year 2019 (1 Oct 2018 - 30 Sept 2019)
Alternate Identifier:DOI PLACE HOLDER
Abstract:

The LTREB monitoring project is a portion of the $200 million-dollar (USD) superfund project for ecological restoration of the Upper Clark Fork River (UCFR), associated tributaries, and head water streams including Silver Bow and Warm Springs Creeks. Restoration along the Upper Clark Fork River includes removal of metal-laden floodplain soils, lowering of the floodplain to its original elevation, and re-vegetation of over 70 km of the river’s floodplain closest to contaminant sources. The UCFR Long Term Research in Environmental Biology (LTREB) project includes bi-weekly water quality monitoring across a 200-km gradient of heavy metal contamination associated with historic mining. Monitoring includes inorganic phosphorus and nitrogen concentrations, biotic standing stocks, and dissolved and whole-water heavy metal concentrations. The UCFR LTREB monitoring project is conducted within the first 200km of the Upper Clark Fork River and associated tributaries located in western Montana. The monitoring program began in 2017 and will be completed in the year 2023 with potential for funding extension. Surface water samples represented in this data product are collected from fourteen sites along the mainstem of the UCFR, and one site representing a major tributary to the UCFR. Water samples are collected at each monitoring site in triplicate and filtered with a 0.7 µm glass fiber filter. Nutrient samples are analyzed using a spectrophotometric flow injection analyzer (AP2) for nitrate (NO3-N), soluble reactive phosphorus (SRP, as representative of PO4-P), and ammonium (NH4-N) concentrations reported in mg/L. The analysis-ready data of this dataset therefore represent Quality Assurance and Quality Control (QAQC) processed NH4-N, SRP, and NO3-N concentrations from fourteen sites along the mainstem of the UCFR and one tributary, collected in water year 2019 (1 Oct 2018 - 30 Sept 2019).

Purpose:
Water quality in the Upper Clark Fork River (UCFR) suffers from a century-old mining legacy. Heavy metals and N-enrichment associated with human activity influence aquatic communities and processes. A $200 million dollar (USD) ecological remediation and restoration of the UCFR was initiated in 2013 and will continue for 20 years. Large-scale ecological restoration of the UCFR floodplain after removal of mine waste contamination is a component of the largest US EPA “superfund” project since implementation of the Comprehensive Environmental Response, Compensation, and Liability Act (CERCLA) by the US government in 1980. Remediation of the uppermost 70 km of the UCFR is removing metal-contaminated sediments while restoration includes restructuring the floodplain and its vegetation while lowering its elevation to promote interaction with the river during high flows. Upgrades to wastewater treatment plants and changing hydrologic conditions will occur even as the State of Montana embarks upon a whole-scale restoration of the UCFR floodplain. Since the 1990s, state agencies and University of Montana (UM) PIs from this project have gathered data on the benthic algae, river water chemistry, and sediment transformation of contaminants in water. UCFR LTREB funds support baseline monitoring of metal contamination, carbon, biomass, nutrients, and metabolic activity. The motivation for extending the long-term dataset is to address changes in the character of subsidies and stressors for river productivity, algal blooms, and ecological integrity in a river being restored from long-term contamination problems.
Publication Date:2023-03-02
For more information:
Visit: DOI PLACE HOLDER

Time Period
Begin:
2018-10-11
End:
2019-09-17

People and Organizations
Contact:Valett, H Maurice (University of Montana) [  email ]
Creator:Valett, H Maurice (University of Montana)
Creator:Utzman, Claire R (University of Montana)
Creator:Lima, Rafael Feijo (University of Montana)
Associate:Young, Fischer L (University of Montana, Investigation)
Associate:Engstrom, Royce (University of Montana, Investigation)
Associate:Hurley, Patrick (University of Montana, Investigation)
Associate:Bayrd, Venice (Montana State University, Data curation)
Associate:Hunter, Shale (Environmental Data Initiative, Data curation)
Associate:Payn, Robert A (Montana State University, Data curation and LTREB project PI at MSU)
Associate:Valett, H Maurice (University of Montana, Lead LTREB PI and Project PI at UM; CREWS co-PI)
Associate:DeGrandpre, Michael D (University of Montana, LTREB Project co-PI)
Associate:Peipoch, Marc (Stroud Water Research Center, LTREB Project co-PI)
Associate:D'Andrilli, Juliana (Louisiana University Marine Consortium, LTREB Project co-PI)

Data Entities
Data Table Name:
AnnualAggregateFile-NH4-SRP-NO3-WY2019.csv
Description:
Surface water samples represented in this data product are collected from fourteen sites along the mainstem of the Upper Clark Fork River, and one site representing a major tributary to the UCFR: the Little Blackfoot River (site 008a). Water samples are collected at each monitoring site in triplicate and filtered with a 0.7 µm glass fiber filter. Nutrient samples are analyzed using a spectrophotometric flow injection analyzer for nitrate (NO3-N), soluble reactive phosphorus (SRP, as representative of PO4-P), and ammonium (NH4-N) concentrations reported in mg/L. The analysis-ready data of this dataset therefore represent Quality Assurance and Quality Control (QAQC) processed NH4-N, SRP, and NO3-N concentrations from fourteen sites along the mainstem of the UCFR and one tributary, collected in water year 2019 (1 Oct 2018 - 30 Sept 2019).
Other Name:
01_input.zip
Description:
Compressed data pipeline folder containing original data files and project default metadata. See methods for details.
Other Name:
02_protocol.zip
Description:
Compressed data pipeline folder containing computational spreadsheet templates, protocols and SOPs, detailed processing notes, and R markdown and R scripts for processing data and metadata. See methods for details.
Other Name:
03_incremental.zip
Description:
Compressed data pipeline folder containing detailed notesand incremental data associated with generation of the data product. See methods for details.
Other Name:
AnnualAggregateFile-NH4-SRP-NO3-WY2019_vis.pdf
Description:
Basic visualization of the NH4N, PO4-SRP, and NO3 data included in this product (postscript data file).
Detailed Metadata

Data Entities


Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/968/3/687684d816151be9a29db9e79f8422f5
Name:AnnualAggregateFile-NH4-SRP-NO3-WY2019.csv
Description:Surface water samples represented in this data product are collected from fourteen sites along the mainstem of the Upper Clark Fork River, and one site representing a major tributary to the UCFR: the Little Blackfoot River (site 008a). Water samples are collected at each monitoring site in triplicate and filtered with a 0.7 µm glass fiber filter. Nutrient samples are analyzed using a spectrophotometric flow injection analyzer for nitrate (NO3-N), soluble reactive phosphorus (SRP, as representative of PO4-P), and ammonium (NH4-N) concentrations reported in mg/L. The analysis-ready data of this dataset therefore represent Quality Assurance and Quality Control (QAQC) processed NH4-N, SRP, and NO3-N concentrations from fourteen sites along the mainstem of the UCFR and one tributary, collected in water year 2019 (1 Oct 2018 - 30 Sept 2019).
Number of Records:657
Number of Columns:9

Table Structure
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Size:32070 bytes
Authentication:29fb14246e4ecdd1912820d33b86dd5a Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\n
Orientation:column
Simple Delimited:
Field Delimiter:,
Quote Character:"

Table Column Descriptions
 
Column Name:dateSample  
calendarYearSample  
calendarMonthSample  
calendarDaySample  
siteID  
repID  
NH4N  
SRP  
NO3N  
Definition:Date of sample collection using a Gregorian calendar in US Mountain time (America/Denver). Property: Time. Entity: Collection of a river water sample. Method: Field sample management protocol. See Methods and Protocols section for further detailed description..Common Era year when the sample was taken. Property: Year. Entity: Collection of a river water sample. Method: Field sample management protocol. See Methods and Protocols section for further detailed description..Month of the year when the sample was taken. Property: Month of year. Entity: Collection of a river water sample. Method: Field sample management protocol. See Methods and Protocols section for further detailed description..Day of the month when the sample was taken. Property: Day of the month. Entity: Collection of a river water sample. Method: Field sample management protocol. See Methods and Protocols section for further detailed description..Identifier for site location. Property: Location. Entity: Upper Clark Fork River geography. Method: Field sample management protocol. See Methods and Protocols section for further detailed description..Identifier for replicate samples. Property: Replicate identifier. Entity: Sampling of river water. Method: Field sample management protocol. See Methods and Protocols section for further detailed description..Ammonium concentration (as N) of a sample of river water. Property: Ammonium concentration as N. Entity: Sample of filtered mixed thalweg river water. Method: Astoria-Pacific Flow Injection Analyzer Spectrophotometry. See Methods and Protocols section for further detailed description..Soluble reactive phosphorus concentration (as P) of a sample of river water. Property: Soluble reactive phosphorus concentration as P. Entity: Sample of filtered mixed thalweg river water. Method: Astoria-Pacific Flow Injection Analyzer Spectrophotometry. See Methods and Protocols section for further detailed description..Nitrate concentration (as N) of a sample of river water. Property: Nitrate concentration as N. Entity: Sample of filtered mixed thalweg river water. Method: Astoria-Pacific Flow Injection Analyzer Spectrophotometry. See Methods and Protocols section for further detailed description..
Storage Type:date  
date  
float  
float  
string  
string  
float  
float  
float  
Measurement Type:dateTimedateTimeratiorationominalnominalratioratioratio
Measurement Values Domain:
FormatYYYYMMDD
Precision
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Min
Max12 
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Allowed Values and Definitions
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DefinitionProject site number 001
Source
Code Definition
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Code Definition
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DefinitionProject site number 013
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Code Definition
CodeJB
DefinitionProject site number JB
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Allowed Values and Definitions
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Code Definition
Codea
DefinitionReplicate sample a
Source
Code Definition
Codeb
DefinitionReplicate sample b
Source
Code Definition
Codec
DefinitionReplicate sample c
Source
UnitmilligramsPerLiter
Typereal
Min0.001 
Max0.081 
UnitmilligramsPerLiter
Typereal
Min-0.002 
Max0.117 
UnitmilligramsPerLiter
Typereal
Min0.001 
Max0.481 
Missing Value Code:
CodeNA
Explnot available
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CodeNA
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Explnot applicable
CodeNA
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CodeNA
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CodeNA
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Accuracy Report:                  
Accuracy Assessment:                  
Coverage:                  
Methods:                  

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Entity Type:unknown
Description:Compressed data pipeline folder containing detailed notesand incremental data associated with generation of the data product. See methods for details.
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Non-Categorized Data Resource

Name:AnnualAggregateFile-NH4-SRP-NO3-WY2019_vis.pdf
Entity Type:unknown
Description:Basic visualization of the NH4N, PO4-SRP, and NO3 data included in this product (postscript data file).
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Data Package Usage Rights

Intellectual rights to the data of this data package are treated separately to the code; please read carefully below. It is considered professional etiquette to provide attribution of the original work if this data package is shared in whole or by individual components. A generic citation is provided for this data package on the website https://portal.edirepository.org (herein "website") in the summary metadata page. Communication (and collaboration) with the creators of this data package is recommended to prevent duplicate research or publication. This data package (and its components) is made available "as is" and with no warranty of accuracy or fitness for use. The creators of this data package and the website shall not be liable for any damages resulting from misinterpretation or misuse of the data package or its components. Periodic updates of this data package may be available from the website. Thank you. ## CODE LICENSE STATEMENT Copyright 2023 - Robert Payn Maintainers: Venice Bayrd and Shale Hunter The code files presented here are available under the MIT License. The full Legal Code text is available below, and also here: https://opensource.org/licenses/MIT. Specific files released under this license include: * _02\_protocol.zip/_ * _.Rprofile_; * _01\_processing.Rmd;_ * _01\_processing\_compile.R;_ * _10\_metadata.Rmd;_ * _10\_metadata\_compile.R;_ * _99\_runall.R;_ * _RStudioProject.Rproj_ ### Legal Code Text - MIT License Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. 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Keywords

By Thesaurus:
LTER Controlled Vocabularydissolved nutrients, concentration, long term monitoring, water chemistry, water quality
(No thesaurus)Upper Clark Fork River restoration, Montana, Northwestern United States, Northwestern Forested Mountains Ecoregion, NSF DEB LTREB 1655197

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Methods and protocols used in the collection of this data package
Description:
## 1. Sample Collection and Measurement Methods Water samples are collected at each monitoring site in triplicate and filtered with a 0.7 µm glass fiber filter. N.b. Dates in the analysis-ready data (i.e., those data available at the root level of the data product in the AnnualAggregateFile-NH4-SRP-NO3-WY2019.csv file) refer to the date of water sample collection. Dates of instrument measurement may be found in the following files: _01\_input/00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_09\_14\_2018\_11\_02\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_09\_14\_2018\_11\_02\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_RESULTS.xlsx_ _01\_input/00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_RESULTS.xlsx_ Data Entities -- Method caption descriptions Where more details are available, each brief "Method" caption provided in the "Data entities" -- "Table column descriptions" -- "Definition" section is cross-referenced with the fuller description below. _Field sample management protocol_: Further documentation on field sample collection and filtration methods is available in the following file: _02\_protocol/00a-2021203-Proc/SOPs-NH4-PO4-NO3/LTREB Monitoring Field Standard Operating Procedure Utzman Ver 4.0 Final March 2021.pdf_ _Astoria-Pacific Flow Injection Analyzer Spectrophotometry_: The Astoria Pacific 2 Segmented Flow Analyzer (AP2) instrument measures water samples under lab conditions for concentrations of the nutrients nitrate (NO3-N), ammonium (NH4-N), and soluble reactive phosphorus (SRP, as representative of PO4-P). The instrument processes sample data on the proprietary Flow Analyzer Software Package, FASPac 2 Version 2.20 (released 12/2012). The FASPac 2 program is designed to interface with a continuous-flow analyzer and to perform analyses in batches of up to 1000 samples. This software calculates concentrations from absorbance readings and provides a copy of the run to store in individual databases. See also _01_input/meta/Ancillary/LTREB\_Software\_Info.docx_ for more detail on FASPac 2. Further documentation on measurement methods and data management is available in _02\_protocol/00a-2021203-Proc/SOPs-NH4-PO4-NO3/_ in the following files: _Quality\_Assurance\_Quality\_Control\_Protocol\_for\_Nutrients.docx_ _Valett Lab AP2 Data Management SOP.docx_ ## 2. Data processing methods This data product is designed to provide the provenance of final tables in a pipeline format representing phases of the scientific workflow, to the degree that provenance is available. Raw data files from instruments and manufacturer software are available in the 01\_input.zip file. Data were preliminarily processed using the computational Excel templates found in 02\_protocol.zip file. The R scripts and R markdown used for final processing of the data and metadata are also available in the 02\_protocol.zip file. Incremental files created in the course of data processing and reflective of significant changes are available in the 03\_incremental.zip file. Ready-to-use analytical data are available at the data package's root level (on the dataset landing page under the "Resources" section), and are described in the full metadata. Contents of the .zip files are described briefly in the subsections below. The data file name schema used in this data product: < Project > \_ < Analyte > \_ < Machine > \_ < Start Date YYYY\_MM\_DD > \_ < End Date YYYY\_MM\_DD > \_ < Time > \_ < File Type > ./01\_input/LTREB\_FILETYPE_README.docx gives column header and other details for \_Results, \_Sample, and \_Visualization file types. File Name Schema key: Project: LTREB; Analyte: One or more of NO3-N, NH4-N, or PO4-P (SRP); Machine: AP2 (Flow Injection Analyzer); Start/End Date: Dates of sample collection; Time: Time of sample collection, (if used) - Mountain Standard Time; File Type: results, sample, process, visualization, final, final_qaqc ## 2.1. Contents of 01\_input.zip _00a-202103-Proc/_ - (where "Proc" = "processed") - Directory containing initial instrument-derived, FASPac2-processed data and simple visualizations for all analytes run; files are further organized by analyte as follows: _00\_NH4-PO4/_ - Directory with analyte-specific files for NH4-N and SRP (as representative of PO4-P). ... _RESULTS.xlsx_ files -- Original ammonium and soluble reactive phosphate raw data .xlsx files containing results from run on AP2 machine (See LTREB\_FILETYPE\_README.docx for column header details): _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_09\_14\_2018\_11\_02\_RESULTS.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_RESULTS.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_RESULTS.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_RESULTS.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_RESULTS.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_RESULTS.xlsx_ ... _VISUALIZATION.fpx_ files -- Faspac software must be downloaded on desktop to access this file type. Original raw data file for ammonium and soluble reactive phosphate identifies absorbance peaks and calculates concentrations reported in mg/L (See LTREB\_FILETYPE\_README.docx for details): _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_09\_14\_2018\_11\_02\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_VISUALIZATION.fpx_ ... _SAMPLE.xlsx_ files -- Original ammonium and soluble reactive phosphate raw data template .xlsx files containing sample ID information (See LTREB\_FILETYPE\_README.docx for column header details): _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_09\_14\_2018\_11\_02\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_SAMPLE.xlsx_ _00\_NO3/_ - Directory with analyte-specific files for NO3-N. ... _RESULTS.xlsx_ files -- Original nitrate raw data .xlsx files containing results from run on AP2 machine (See LTREB\_FILETYPE\_README.docx for column header details): _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_09\_14\_2018\_11\_02\_RESULTS.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_RESULTS.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_RESULTS.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_RESULTS.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_RESULTS.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_RESULTS.xlsx_ ... _VISUALIZATION.fpx_ files -- Faspac software must be downloaded on desktop to access this file type. Original raw data file for nitrate identifies absorbance peaks and calculates concentrations reported in mg/L (See LTREB\_FILETYPE\_README.docx for column header details): _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_09\_14\_2018\_11\_02\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_VISUALIZATION.fpx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_VISUALIZATION.fpx_ ... _SAMPLE.xlsx_ files -- Original nitrate raw data template .xlsx files containing sample ID information (See LTREB\_FILETYPE\_README.docx for column header details): _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_09\_14\_2018\_11\_02\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_SAMPLE.xlsx_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_SAMPLE.xlsx_ _LTREB\_FILETYPE\_README.docx_ - Original internal metadata file with file naming structure, content types, and column header metadata (where relevant) for the three content types found in 01\_input: - [projectName]\_[analytes]\_[machine]\_[dateStart]\_[dateEnd]\_SAMPLE.xlsx - [projectName]\_[analytes]\_[machine]\_[dateStart]\_[dateEnd]\_VISUALIZATION.fpx - [projectName]\_[analytes]\_[machine]\_[dateStart]\_[dateEnd]\_RESULTS.xlsx _meta/_ - Directory with project templates for metadata. _meta/2021 Site Table.xlsx_ - Microsoft Excel file with authoritative project site list at the time of publication of these data. _meta/Ancillary/_ -Directory of original internal narrative metadata files (for reference only, not thoroughly verified) _meta/attributes.xlsx_ - Microsoft Excel file with description of data table column attributes found in analysis-ready data files. _meta/people.xlsx_ - Excel file with tabular data on people associated with the project, used for metadata generation. ## 2.2. Contents of 02\_protocol.zip Template .xlsx files included here are computational spreadsheets representing AP2 run calibrant concentrations and run details, as well as the sample QAQC processing calculations described in corresponding narrative protocol documents in the SOPs directory. R code in the protocol depends on R packages: `tidyr`, `readtext`, `knitr`, `readxl`, `EMLassemblyline`, `stringi`, `xml2`, `dplyr`, and others as indicated in-file. Code also makes system calls to the zip command using a custom wrapper of the `zip()` function from the `utils` package. _.RProfile_ - An R profile file with R code that establishes the appropriate working directory for the R project used to generate this data product. _00a-202103-Proc/_ - (where "Proc" = "processed") - Directory containing computational spreadsheet templates used in further processing (calibration curves; etc) of initial instrument-derived FASPac2-processed data (see 03\_incremental files, parallel directory structure for resulting processed data from this step). Directory is further organized by analyte, whereunder are found computational spreadsheets; and an SOPs directory containing narrative protocols and standard operating procedures (SOPs) for field, lab, and data management procedures: _00\_NH4-PO4/_ - Directory with analyte-specific files for NH4-N and SRP (as representative of PO4-P). _00a-2021203-Proc/00\_NH4-PO4/AP2\_NH4N\_SRP\_Processing\_Template.xlsx_ File: Computational spreadsheet that performs the sample processing calculations for ammonium and soluble reactive phosphate as described in corresponding narrative protocol documents in the SOPs directory. _00a-2021203-Proc/00\_NH4-PO4/AP2\_Sample\_Table\_Template\_NH4N\_SRP.xlsx_ File: Computational spreadsheets representing AP2 run calibrant concentrations and run details for ammonium and soluble reactive phosphate, as described in corresponding narrative protocol documents in the SOPs directory. ... _PROCESS.xlsx_ files: Processed ammonium and soluble reactive phosphate data files inclusive of both computational equations and initial QAQC'd results from run on AP2 machine: _00a-2021203-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_09\_14\_2018\_11\_02\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_PROCESS.xlsx_ _00\_NO3/_ - Directory with analyte-specific files for NO3-N. _00a-2021203-Proc/00\_NO3/AP2\_NO3N\_Processing\_Template.xlsx_ File: Computational spreadsheet that performs the sample processing calculations for nitrate as described in corresponding narrative protocol documents in the SOPs directory. _00a-2021203-Proc/00\_NO3/AP2\_Sample\_Table\_Template\_NO3N.xlsx_ File: Computational spreadsheets representing AP2 run calibrant concentrations and run details for nitrate, as described in corresponding narrative protocol documents in the SOPs directory. ... _PROCESS.xlsx_ files -- Processed nitrate data files inclusive of both computational equations and initial QAQC'd results from run on AP2 machine: _00a-2021203-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_09\_14\_2018\_11\_02\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_PROCESS.xlsx_ _00a-2021203-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_PROCESS.xlsx_ _SOPs-NH4-PO4-NO3/_ - Directory with narrative standard operating procedures (SOPs) used in the field and lab for generating NH4-N, SRP (as representative of PO4-P), and NO3-N data. _00a-2021203-Proc/SOPs-NH4-PO4-NO3/LTREB Monitoring Field Standard Operating Procedure Utzman Ver 4.0 Final March 2021.pdf_ File: PDF version of procedures detailing field sampling, filtering, measuring, cleaning, and storage protocols. _00a-2021203-Proc/SOPs-NH4-PO4-NO3/Quality\_Assurance\_Quality\_Control\_Protocol\_for\_Nutrients.docx_ File: QAQC procedures to process measured samples including calibration curve fitting to correct concentrations. _00a-2021203-Proc/SOPs-NH4-PO4-NO3/Valett Lab AP2 Data Management SOP.docx_ File: This protocol serves to prepare, archive, and process data generated by the Astoria Pacific 2 Segmented Flow Analyzer (AP2). The AP2 is used to generate data for the nutrients: NO3-N, NH4-N, SRP (as representative of PO4-P). _00b-202110-QAQC/_ - Directory containing narrative descriptions of processes used in further quality assurance processing of initial instrument-derived FASPac2-processed data. _00b-202110-QAQC/Quality\_Assurance\_Quality\_Control\_Protocol\_for\_Nutrients\_WY2019\_RFL.docx_ File: Written description of corrections made during the final QAQC process. _00c-202206-validationQAQC/_ - Directory containing narrative description of curation activities. _00c-202206-validationQAQC/00-README-validationQAQC.txt_ File: Written description of adjustments and/or corrections made during the curatorial process. _01\_processing\_compile.R_ - R script that compiles the processing R markdown to an HTML document (03\_Incremental.zip - processing\_notes.html) _01\_processing.Rmd_ - R markdown defining the reformatting of the data tables and associated column metadata. _10\_metadata\_compile.R_ - R script that compiles the metadata R markdown to an HTML document (metadata.html) and an EML file (eml.xml). _10\_metadata.Rmd_ - R markdown defining the generation of the metadata file and the EML file based on EDI EML assembly line. _99\_runall.R_ - Convenience R script for fully regenerating the data product. _RStudioProject.Rproj_ - An RStudio project file provided for convenience in working with the code generating this data product with the appropriate working directory. ## 2.3. Contents of 03\_incremental.zip A combination of intermediary files generated at different stages of data processing and curation. _00a-202103-Proc/_ - (where "Proc" = "processed") - Directory containing data tables resulting from the computational spreadsheet templates used in processing (calibration curves; etc) of initial instrument-derived FASPac2-processed data. Directory is further organized by analyte, whereunder are found data at an incremental stage of processing. _00a-202103-Proc/00\_NH4-PO4/_ - Directory with analyte-specific data files for NH4-N and SRP (as representative of PO4-P) after final round of initial processing and QA, prior to final QA. ... _FINAL.csv_ files -- Re-processed and QA'd ammonium and soluble reactive phosphate data files: _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_FINAL.csv_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_FINAL.csv_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_FINAL.csv_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_FINAL.csv_ _00a-202103-Proc/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_FINAL.csv_ _00a-202103-Proc/00\_NO3/_ - Directory with analyte-specific files for NO3-N after final round of initial processing and QA, prior to final QA. ... _FINAL.csv_ files -- Re-processed and QA'd nitrate data files: _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_FINAL.csv_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_FINAL.csv_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_FINAL.csv_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_FINAL.csv_ _00a-202103-Proc/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_FINAL.csv_ _00b-202110-QAQC/_ - Directory containing computational spreadsheet templates used in further quality assurance processing of initial instrument-derived FASPac2-processed data. Directory is further organized by analyte, whereunder are found computational spreadsheets, as follows: _00b-202110-QAQC/00\_NH4-PO4/_ - Directory with analyte-specific files for NH4-N and SRP (as representative of PO4-P). ... _FINAL\_QAQC.xlsx_ files -- Final QA of ammonium and soluble reactive phosphate data files: _00b-202110-QAQC/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_09\_14\_2018\_11\_02\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2018\_12\_07\_2019\_03\_12\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_04\_18\_2019\_05\_30\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_06\_10\_2019\_07\_09\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_07\_23\_2019\_08\_22\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NH4-PO4/LTREB\_NH4\_PO4\_AP2\_2019\_09\_06\_2019\_10\_04\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NO3/_ - Directory with analyte-specific files for NO3-N. ... _FINAL\_QAQC.xlsx_ files -- Final QA of nitrate data files: _00b-202110-QAQC/00\_NO3/LTREB\_NO3\_AP2\_2018\_09\_14\_2018\_11\_02\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NO3/LTREB\_NO3\_AP2\_2018\_12\_07\_2019\_03\_12\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NO3/LTREB\_NO3\_AP2\_2019\_04\_18\_2019\_05\_30\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NO3/LTREB\_NO3\_AP2\_2019\_06\_10\_2019\_07\_09\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NO3/LTREB\_NO3\_AP2\_2019\_07\_23\_2019\_08\_22\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/00\_NO3/LTREB\_NO3\_AP2\_2019\_09\_06\_2019\_10\_04\_FINAL\_QAQC.xlsx_ _00b-202110-QAQC/AnnualAggregateFile-NH4-SRP-NO3-WY2019.csv_ -- Processed and QA'd ammonium, soluble reactive phosphate, and nitrate data file. WY2018 values (2018-09-14 - 2018-09-30) and WY2020 values (2019-10-04) removed by this point. _meta/_ - Directory with narrative metadata elements incorporated into metadata summary and EML. _meta/abstract.md_ - A markdown text file sourcing the data abstract. _meta/methods.md_ - A markdown text file sourcing the description of methods. _meta/purpose.txt_ - An unformatted text file sourcing the description of purpose. _meta/intellectual\_rights.md_ - A text file sourcing the license for data reuse, used for metadata generation. _metadata\_summary.html_ - [\*\*Not included in downloaded data product, however: R code included in this product will generate this temporary file in the ./03\_incremental folder. This temporary file contains no unique data or metadata and thus is not archived in the corresponding zip file, but may appear when when new users run the R code on their local systems.] File descr: Summary of metadata and the process of archiving the workflow pipeline and compiling the associated metadata into EML. _processing\_notes.html_ - File: Metadata regarding the processing of the raw data files to the product's data tables and basic visualizations. _temp/_ [\*\*Not included in downloaded data product, however: R code included in this product will generate temporary files in the ./03\_incremental/temp folder. These temporary files contain no unique data or metadata and thus are not archived in the corresponding zip file, but may appear when when new users run the R code on their local systems.]

People and Organizations

Publishers:
Organization:Environmental Data Initiative
Email Address:
info@edirepository.org
Web Address:
https://edirepository.org
Id:https://ror.org/0330j0z60
Creators:
Individual: H Maurice Valett
Organization:University of Montana
Email Address:
Maury.Valett@mso.umt.edu
Id:https://orcid.org/0000-0001-7146-6420
Individual: Claire R Utzman
Organization:University of Montana
Email Address:
claire.utzman@mso.umt.edu
Id:https://orcid.org/0000-0002-3228-8470
Individual: Rafael Feijo Lima
Organization:University of Montana
Email Address:
rafael.feijo@mso.umt.edu
Id:https://orcid.org/0000-0001-8514-2195
Contacts:
Individual: H Maurice Valett
Organization:University of Montana
Email Address:
Maury.Valett@mso.umt.edu
Id:https://orcid.org/0000-0001-7146-6420
Associated Parties:
Individual: Fischer L Young
Organization:University of Montana
Email Address:
fischer.young@umontana.edu
Id:https://orcid.org/0000-0003-4439-2483
Role:Investigation
Individual: Royce Engstrom
Organization:University of Montana
Email Address:
royce.engstrom@umontana.edu
Role:Investigation
Individual: Patrick Hurley
Organization:University of Montana
Email Address:
patrick.hurley@umontana.edu
Role:Investigation
Individual: Venice Bayrd
Organization:Montana State University
Email Address:
venice.bayrd@montana.edu
Id:https://orcid.org/0000-0002-5814-9380
Role:Data curation
Individual: Shale Hunter
Organization:Environmental Data Initiative
Email Address:
shale@bren.ucsb.edu
Id:https://orcid.org/0000-0002-1391-603X
Role:Data curation
Individual: Robert A Payn
Organization:Montana State University
Email Address:
rpayn@montana.edu
Id:https://orcid.org/0000-0001-8421-525X
Role:Data curation and LTREB project PI at MSU
Individual: H Maurice Valett
Organization:University of Montana
Email Address:
Maury.Valett@mso.umt.edu
Id:https://orcid.org/0000-0001-7146-6420
Role:Lead LTREB PI and Project PI at UM; CREWS co-PI
Individual: Michael D DeGrandpre
Organization:University of Montana
Email Address:
michael.degrandpre@mso.umt.edu
Id:https://orcid.org/0000-0003-1969-6709
Role:LTREB Project co-PI
Individual: Marc Peipoch
Organization:Stroud Water Research Center
Email Address:
mpeipoch@stroudcenter.org
Id:https://orcid.org/0000-0002-5943-831X
Role:LTREB Project co-PI
Individual: Juliana D'Andrilli
Organization:Louisiana University Marine Consortium
Email Address:
jdandrilli@lumcon.edu
Id:https://orcid.org/0000-0002-3352-2564
Role:LTREB Project co-PI

Temporal, Geographic and Taxonomic Coverage

Temporal, Geographic and/or Taxonomic information that applies to all data in this dataset:

Time Period
Begin:
2018-10-11
End:
2019-09-17
Sampling Site: 
Description:Site ID 001, restoration project reach A: bridge on Garnet Way (site name: Warm Springs)
Site Coordinates:
Longitude (degree): -112.770111111111Latitude (degree): 46.1870222222222
Sampling Site: 
Description:Site ID 002, restoration project reach A: bridge on Perkins Rd from frontage access, location of Galen USGS gauge 12323800 (site name: Perkins)
Site Coordinates:
Longitude (degree): -112.767502777778Latitude (degree): 46.2084666666667
Sampling Site: 
Description:Site ID 003, restoration project reach A: bridge on Galen Road (site name: Galen)
Site Coordinates:
Longitude (degree): -112.753194444444Latitude (degree): 46.2373
Sampling Site: 
Description:Site ID 004, restoration project reach A: bridge on corner of W River Road and Gembeck Road, upstream of of Racetrack exit (site name: Racetrack)
Site Coordinates:
Longitude (degree): -112.744577777778Latitude (degree): 46.2654055555556
Sampling Site: 
Description:Site ID 005, restoration project reach A: bridge on Sager Lane (site name: Sager)
Site Coordinates:
Longitude (degree): -112.736238888889Latitude (degree): 46.3172666666667
Sampling Site: 
Description:Site ID 006, restoration project reach A: DL park on frontage Rd north of bridge (site name: Deer Lodge)
Site Coordinates:
Longitude (degree): -112.738411111111Latitude (degree): 46.3829861111111
Sampling Site: 
Description:Site ID 007, restoration project reach A: bridge on Rock Creek Cattle Rd (site name: Cattle Rd)
Site Coordinates:
Longitude (degree): -112.72825Latitude (degree): 46.4727722222222
Sampling Site: 
Description:Site ID 008, restoration project reach A: Above LBf River- river access from the fishing access road off the Beck Hill exit before the fishing loop from the road (site name: Garrison)
Site Coordinates:
Longitude (degree): -112.739544444444Latitude (degree): 46.4985388888889
Sampling Site: 
Description:Site ID 008a, restoration project reach trib: Little Blackfoot River at USGS gage site - tributary sampling site just upstream of bridge on frontage road (site name: Little Blackfoot)
Site Coordinates:
Longitude (degree): -112.793413888889Latitude (degree): 46.5195027777778
Sampling Site: 
Description:Site ID 009, restoration project reach B: below bridge on Gold Cr road, access is downstream, river right (site name: Gold Creek)
Site Coordinates:
Longitude (degree): -112.928541666667Latitude (degree): 46.5901027777778
Sampling Site: 
Description:Site ID 010, restoration project reach B: Bear Mouth rest stop on I90 W, upstream end of parking lot, just downstream of lone pine on bank (site name: Bear Gulch)
Site Coordinates:
Longitude (degree): -113.345752777778Latitude (degree): 46.7037916666667
Sampling Site: 
Description:Site ID 011, restoration project reach B: Downstream from the bridge for Gillespie-Sliderock Road (site name: Bonita)
Site Coordinates:
Longitude (degree): -113.5724Latitude (degree): 46.7217694444444
Sampling Site: 
Description:Site ID 012, restoration project reach C: bridge on Turah Rd (site name: Turah)
Site Coordinates:
Longitude (degree): -113.813647222222Latitude (degree): 46.8262416666667
Sampling Site: 
Description:Site ID 013, restoration project reach Middle Fork: foot bridge on Madison, UM (site name: Missoula)
Site Coordinates:
Longitude (degree): -113.983116666667Latitude (degree): 46.8674388888889
Sampling Site: 
Description:Site ID JB, restoration project reach B: Near the bridge for Jens Road downstream from Goldcreek (site name: Jens Bridge)
Site Coordinates:
Longitude (degree): -113.012865Latitude (degree): 46.594844

Project

Parent Project Information:

Title:LTREB: Collaborative research - River ecosystem responses to floodplain restoration
Personnel:
Individual: H Maurice Valett
Organization:University of Montana
Email Address:
Maury.Valett@mso.umt.edu
Id:https://orcid.org/0000-0001-7146-6420
Role:Principal Investigator
Funding: US National Science Foundation 1655197
Related Project:
Title:LTREB: Collaborative research - River ecosystem responses to floodplain restoration
Personnel:
Individual: Robert A Payn
Organization:Montana State University
Email Address:
rpayn@montana.edu
Id:https://orcid.org/0000-0001-8421-525X
Role:Principal Investigator
Funding: US National Science Foundation 1655198
Related Project:
Title:RII Track-1 Consortium for Research on Environmental Water Systems
Personnel:
Individual: Ragan Callaway
Organization:University of Montana
Email Address:
ray.callaway@mso.umt.edu
Id:https://orcid.org/0000-0001-7342-4312
Role:Principal Investigator
Funding: US National Science Foundation 1757351

Maintenance

Maintenance:
Description:Completed: Updates to these data are not expected
Frequency:
Other Metadata

Additional Metadata

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        |     |     |___element 'release'
        |     |     |     |___text '3.5.4'
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EDI is a collaboration between the University of New Mexico and the University of Wisconsin – Madison, Center for Limnology:

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