doremi

Dynamics of Return to Equilibrium During Multiple Inputs

v1.0.0 · Jan 29, 2021 · GPL-3

Description

Provides models to fit the dynamics of a regulated system experiencing exogenous inputs. The underlying models use differential equations and linear mixed-effects regressions to estimate the coefficients of the equation. With them, the functions can provide an estimated signal. The package provides simulation and analysis functions and also print, summary, plot and predict methods, adapted to the function outputs, for easy implementation and presentation of results.

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Check details (30 non-OK)

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Rd files

checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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checkRd: (-1) calculate.gold.Rd:33: Lost braces
    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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checkRd: (-1) optimum_param.Rd:47: Lost braces
    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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dependencies in R code

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checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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dependencies in R code

Namespace in Imports field not imported from: ‘gridExtra’
  All declared Imports should be used.

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Problems with news in ‘NEWS.md’:
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checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) calculate.fda.Rd:29: Lost braces
    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) rotation.Rd:37: Lost braces
    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
       |                                                       ^
checkRd: (-1) optimum_param.Rd:47: Lost braces
    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
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    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
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    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
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    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
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    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
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    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
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    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
       |                                                                                                                                                 ^
checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
       |                                                                                                                                              ^
checkRd: (-1) calculate.fda.Rd:29: Lost braces
    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
       |                                                                     ^
checkRd: (-1) calculate.fda.Rd:30: Lost braces
    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
       |                                         ^
checkRd: (-1) calculate.glla.Rd:34: Lost braces
    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
       |                                         ^
checkRd: (-1) calculate.gold.Rd:33: Lost braces
    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
       |                                                       ^
checkRd: (-1) optimum_param.Rd:47: Lost braces
    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
       |                                                                                                ^
checkRd: (-1) rotation.Rd:37: Lost braces
    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
       |                                  ^

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Rd files

checkRd: (-1) analyze.1order.Rd:49: Lost braces
    49 | Although only the first derivative is used here, using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
       |                                                                                                                                                 ^
checkRd: (-1) analyze.2order.Rd:44: Lost braces
    44 | 2 in second order differential equations), for instance, order=4 might enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
       |                                                                                                                                              ^
checkRd: (-1) calculate.fda.Rd:29: Lost braces
    29 | method described in several sources, such as in \doi{10.1007/b98888}{Ramsay et al. (2009)}
       |                                                                     ^
checkRd: (-1) calculate.fda.Rd:30: Lost braces
    30 | and  \doi{10.1080/00273171.2015.1123138}{Chow et al. (2016)}.
       |                                         ^
checkRd: (-1) calculate.glla.Rd:34: Lost braces
    34 | described in \doi{10.4324/9780203864746}{Boker et al.(2010)}.
       |                                         ^
checkRd: (-1) calculate.gold.Rd:33: Lost braces
    33 | method described in \doi{10.1080/00273171.2010.498294}{Deboeck (2010)}. The code available on this paper was extracted and adapted for non constant time steps.
       |                                                       ^
checkRd: (-1) optimum_param.Rd:47: Lost braces
    47 | Using a higher order can enhance derivative estimation (see \doi{10.1080/00273171.2015.1123138}{Chow et al.(2016)})}
       |                                                                                                ^
checkRd: (-1) rotation.Rd:37: Lost braces
    37 | \doi{10.1016/j.yhbeh.2012.12.007}{(Courvoisier et al., 2013)}.
       |                                  ^

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Check History

NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 9, 2026

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Reverse Dependencies (1)

imports

datadriftR

Dependency Network

Version History

new 1.0.0 Mar 9, 2026

Maintainer

Mongin Denis

Dependencies

Imports

zoo data.table lme4 ggplot2 gridExtra lmerTest deSolve futile.logger

Suggests

knitr rmarkdown devtools roxygen2

Compilation

No compilation needed

First Published

Mar 9, 2026

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