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DESCRIPTION
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DESCRIPTION
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Package: streamMetabolizer
Type: Package
Title: Models for Estimating Aquatic Photosynthesis and Respiration
Version: 0.12.1
Date: 2023-07-02
Author: Alison P. Appling, Robert O. Hall, Jr., Maite Arroita, and Charles B.
Yackulic
Authors@R: c(
person("Alison P.", "Appling", , "aappling@usgs.gov", c("aut", "cre")),
person("Robert O.", "Hall", , , "aut"),
person("Maite", "Arroita", , , "aut"),
person("Charles B.", "Yackulic", , , "aut")
)
Maintainer: Alison Appling <aappling@usgs.gov>
Description: streamMetabolizer uses inverse modeling to estimate aquatic
photosynthesis and respiration (collectively, metabolism) from time series
data on dissolved oxygen, water temperature, depth, and light. The package
assists with data preparation, handles data gaps during modeling, and
provides tabular and graphical reports of model outputs. Several
time-honored methods are implemented along with many promising new variants
that produce more accurate and precise metabolism estimates.
License: file LICENSE
Copyright: This software is in the public domain because it contains materials
that originally came from the United States Geological Survey, an agency of
the United States Department of Interior. For more information, see the
official USGS copyright policy at
https://www.usgs.gov/visual-id/credit_usgs.html#copyright
URL: https://github.com/USGS-R/streamMetabolizer, http://usgs-r.github.io/streamMetabolizer/
BugReports: https://github.com/USGS-R/streamMetabolizer/issues
VignetteBuilder: knitr
Depends:
R (>= 3.0)
Imports:
deSolve,
dplyr (>= 0.5.0),
LakeMetabolizer (>= 1.4.1),
lazyeval,
lifecycle,
lubridate,
magrittr,
methods,
tibble (>= 1.1.0),
tidyr,
unitted (>= 0.2.8)
Suggests:
chron,
devtools,
dygraphs,
ggplot2,
gridExtra,
knitr,
microbenchmark,
RCurl,
rstan,
testthat,
XML,
xts,
rmarkdown
Remotes:
github::appling/unitted
Collate:
'01-onLoad.R'
'calc_DO_deficit.R'
'calc_DO_sat.R'
'calc_air_pressure.R'
'calc_bins.R'
'calc_depth.R'
'calc_is_daytime.R'
'calc_light.R'
'calc_light_merged.R'
'calc_solar_insolation.R'
'calc_solar_time.R'
'calc_sun_rise_set.R'
'calc_velocity.R'
'convert_PAR_to_SW.R'
'convert_UTC_to_localtime.R'
'convert_UTC_to_solartime.R'
'convert_date_to_doyhr.R'
'convert_k600_to_kGAS.R'
'create_calc_DO.R'
'create_calc_NLL.R'
'create_calc_dDOdt.R'
'data_metab.R'
'deprecated.R'
'load_french_creek.R'
'load_french_creek_std.R'
'load_spring_creek.R'
'lookup_timezone.R'
'lookup_usgs_elevation.R'
'metab.R'
'metab_model_interface.R'
'specs-class.R'
'metab_model-class.R'
'metab_Kmodel.R'
'metab_bayes.R'
'metab_inputs.R'
'metab_mle.R'
'metab_model.get_param_names.R'
'metab_model.get_params.R'
'metab_model.predict_DO.R'
'metab_model.predict_metab.R'
'metab_model.show.R'
'metab_night.R'
'metab_sim.R'
'mm_check_mcmc_file.R'
'mm_data.R'
'mm_filter_dates.R'
'mm_filter_hours.R'
'mm_filter_valid_days.R'
'mm_validate_name.R'
'mm_valid_names.R'
'mm_parse_name.R'
'mm_name.R'
'mm_generate_mcmc_file.R'
'mm_get_timestep.R'
'mm_is_valid_day.R'
'mm_locate_filename.R'
'mm_model_by_ply.R'
'mm_model_by_ply_prototype.R'
'mm_predict_DO_1ply.R'
'mm_predict_metab_1ply.R'
'mm_sd_to_ci.R'
'mm_validate_data.R'
'plot_DO_preds.R'
'plot_distribs.R'
'plot_metab_preds.R'
'revise.R'
'specs.R'
'streamMetabolizer-deprecated.R'
'streamMetabolizer.R'
'zz_build_docs.R'
RoxygenNote: 7.1.1
Encoding: UTF-8