In summer or fall 2023, this package will move from https://github.com/USGS-R/loadflex to https://github.com/DOI-USGS/loadflex Please update your links accordingly.
The loadflex R package implements several of the most common methods
for modeling and predicting watershed solute fluxes and concentrations,
including interpolation and regression models, period-weighted
averaging, and the composite method. loadflex integrates seamlessly
with the USGS’s
rloadest package
and with native R regression models. It offers a uniform interface for
any model type, with which you can quickly fit models, generate
predictions, and aggregate to monthly or annual values.
This package has been described in Appling et al. (2015):
Appling, A. P., Leon, M. C., & McDowell, W. H. (2015). Reducing bias and quantifying uncertainty in watershed flux estimates: The R package
loadflex. Ecosphere, 6(12), art269. https://doi.org/10.1890/ES14-00517.1
To see the recommended citation for this package, please run
citation('loadflex') at the R prompt.
citation('loadflex')
##
## To cite package 'loadflex' in publications use:
##
## Appling, A. P., M. C. Leon, and W. H. McDowell. 2015. Reducing bias
## and quantifying uncertainty in watershed flux estimates: the R
## package loadflex. Ecosphere 6(12):269.
## https://doi.org/10.1890/ES14-00517.1
##
## A BibTeX entry for LaTeX users is
##
## @Article{,
## title = {Reducing bias and quantifying uncertainty in watershed flux estimates: the R package loadflex},
## author = {Alison P. Appling and Miguel C. Leon and William H. McDowell},
## year = {2015},
## journal = {Ecosphere},
## volume = {6},
## number = {12},
## pages = {art269},
## doi = {10.1890/ES14-00517.1},
## url = {http://www.esajournals.org/doi/full/10.1890/ES14-00517.1},
## }To install the loadflex package, use the remotes package as follows
(running install.packages('remotes') first if needed). To use
remotes::install_gitlab() it is convenient to set a GitLab Personal
Access Token
(PAT).
Similarly, to use remotes::install_github() it is convenient to set a
GitHub
PAT.
There are several
methods for
setting your PATs within R; the simplest is to call
`Sys.setenv(GITLAB_PAT=“xxxx”, GITHUB_PAT=“yyyy”), replacing xxxx and
yyyy with the PATs you established on the GitLab and GitHub websites.
You will also need a compiler to install smwrStats, smwrQW, and
rloadest – for Windows, see
https://cran.r-project.org/bin/windows/Rtools/rtools43/rtools.html.
For Mac, see https://mac.r-project.org/tools/.
library(remotes)
remotes::install_gitlab("water/analysis-tools/smwrData", host = "code.usgs.gov")
remotes::install_gitlab("water/analysis-tools/smwrBase", host = "code.usgs.gov")
remotes::install_gitlab("water/analysis-tools/smwrGraphs", host = "code.usgs.gov")
remotes::install_gitlab("water/analysis-tools/smwrStats", host = "code.usgs.gov") # needs compilation
remotes::install_gitlab("water/analysis-tools/smwrQW", host = "code.usgs.gov") # needs compilation
remotes::install_gitlab("water/analysis-tools/rloadest", host = "code.usgs.gov") # needs compilation
remotes::install_github("appling/unitted")
remotes::install_github("DOI-USGS/EGRET")
remotes::install_github("USGS-R/loadflex") # soon to be "DOI-USGS/loadflex"Also please see the installation FAQ on the wiki (https://github.com/USGS-R/loadflex/wiki/Installation-FAQ) if you run into trouble.
To get started, load the package with library(loadflex) and type
?loadflex or vignette('intro_to_loadflex').
loadflex is a USGS Archive Research Package:
Project funding has ended and our maintenance time is limited, but we do attempt to provide bug fixes and lightweight support as we are able. Submit questions or suggestions to https://github.com/USGS-R/loadflex/issues.
We want to encourage a warm, welcoming, and safe environment for contributing to this project. See CODE_OF_CONDUCT.md for more information.
For technical details on how to contribute, see CONTRIBUTING.md
We want to encourage a warm, welcoming, and safe environment for contributing to this project. See CODE_OF_CONDUCT.md for more information.
For technical details on how to contribute, see CONTRIBUTING.md
loadflex was created 2013-2015 by Alison
Appling and Miguel
Leon with the support of Bill
McDowell and the McDowell
lab at the University of New
Hampshire. Funding for the project was provided by the National Science
Foundation, USDA National Institute of Food and Agriculture, and the NH
Agricultural Experiment Station. Funding for the example dataset from
the Lamprey River was provied by the EPA, NH Water Resources Research
Center, NH Agricultural Experiment Station, NH Sea Grant, USGS, and NSF.
Additional development and maintenance in 2016-2017 was done by Alison Appling, Lindsay Platt, and David Watkins with support from the USGS National Water Quality Program and the USGS Office of Water Information.
The following version of R and package dependencies were used most recently to pass the embedded tests within this package. There is no guarantee of reproducible results using future versions of R or updated versions of package dependencies; however, we aim to test and update future modeling environments.
> sessioninfo::session_info()
## (TBD)This software is preliminary or provisional and is subject to revision. It is being provided to meet the need for timely best science. The software has not received final approval by the U.S. Geological Survey (USGS). No warranty, expressed or implied, is made by the USGS or the U.S. Government as to the functionality of the software and related material nor shall the fact of release constitute any such warranty. The software is provided on the condition that neither the USGS nor the U.S. Government shall be held liable for any damages resulting from the authorized or unauthorized use of the software.
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