forked from DOI-USGS/streamMetabolizer
-
Notifications
You must be signed in to change notification settings - Fork 1
/
DESCRIPTION
131 lines (131 loc) · 3.6 KB
/
DESCRIPTION
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
Package: streamMetabolizer
Type: Package
Title: Models for Estimating Aquatic Photosynthesis and Respiration
Version: 0.12.0
Date: 2021-07-05
Author: Alison P. Appling, Robert O. Hall, Jr., Maite Arroita, and Charles B.
Yackulic
Authors@R: c(
person("Alison P.", "Appling", , "[email protected]", c("aut", "cre")),
person("Robert O.", "Hall", , , "aut"),
person("Maite", "Arroita", , , "aut"),
person("Charles B.", "Yackulic", , , "aut")
)
Maintainer: Alison Appling <[email protected]>
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
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
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