From 6178249bbb5e9de7cb7f34287ee7de28a68fed6c Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Wed, 10 Aug 2022 15:38:17 +0200 Subject: Change dev branch used for docs, update static docs --- docs/dev/news/index.html | 88 ++++++++++++++++++++++++++---------------------- 1 file changed, 47 insertions(+), 41 deletions(-) (limited to 'docs/dev/news/index.html') diff --git a/docs/dev/news/index.html b/docs/dev/news/index.html index 39e7a52e..b501ed55 100644 --- a/docs/dev/news/index.html +++ b/docs/dev/news/index.html @@ -17,7 +17,7 @@ mkin - 1.1.0 + 1.1.2 @@ -26,7 +26,7 @@ Functions and data
  • -
  • Example evaluation of FOCUS Laboratory Data L1 to L3
    • +
  • + Example evaluations of dimethenamid data from 2018 with nonlinear mixed-effects models +
  • Example evaluation of FOCUS Example Dataset Z
    • @@ -79,21 +82,40 @@
    -

    mkin 1.1.0 (unreleased)

    +

    mkin 1.1.2

    +
    +
    +

    mkin 1.1.1 (2022-07-12)

    +
    +
    +

    mkin 1.1.0 (2022-03-14)

    Mixed-effects models

    -

    • Introduce an interface to nlmixr, supporting estimation methods ‘saem’ and ‘focei’: S3 method ‘nlmixr.mmkin’ using the helper functions ‘nlmixr_model’ and ‘nlmixr_data’ to set up nlmixr models for mmkin row objects, with summary and plot methods.

      • -

    • Reintroduce the interface to saemix (now on CRAN), in particular the generic function ‘saem’ with a generator ‘saem.mmkin’, currently using ‘saemix_model’ and ‘saemix_data’, summary and plot methods

      • +

      • Reintroduce the interface to saemix version 3.0 (now on CRAN), in particular the generic function ‘saem’ with a generator ‘saem.mmkin’, currently using ‘saemix_model’ and ‘saemix_data’, summary and plot methods

      • ‘mean_degparms’: New argument ‘test_log_parms’ that makes the function only consider log-transformed parameters where the untransformed parameters pass the t-test for a certain confidence level. This can be used to obtain more plausible starting parameters for the different mixed-effects model backends

      • ‘plot.mixed.mmkin’: Gains arguments ‘test_log_parms’ and ‘conf.level’

      • ‘vignettes/web_only/dimethenamid_2018.rmd’: Example evaluations of the dimethenamid data.

        • -

      • ‘intervals’: Provide methods of this nlme function for ‘nlmixr.mmkin’ and ‘saem.mmkin’ objects.

        • +

      • ‘intervals’: Provide a method of this nlme function for ‘saem.mmkin’ objects.

    mkin 1.0.5 (2021-09-15)

    -
    +

    mkin 1.0.4 (2021-04-20)

    mkin 1.0.3 (2021-02-15)

    -
    +

    mkin 1.0.2 (Unreleased)

    -
    +

    mkin 1.0.1 (2021-02-10)

    mkin 0.9.49.11 (2020-04-20)

    -
    +

    mkin 0.9.49.10 (2020-04-18)

    mkin 0.9.46 (2017-07-24)

    -
    +

    mkin 0.9.45.2 (2017-07-24)

    mkin 0.9.45 (2016-12-08)

    @@ -307,8 +324,7 @@

    mkin 0.9.44 (2016-06-29)

    Bug fixes

    -
    • The test test_FOMC_ill-defined failed on several architectures, so the test is now skipped
      • -
    +

    mkin 0.9.43 (2016-06-28)

    @@ -342,8 +358,7 @@

    mkin 0.9.42 (2016-03-25)

    Major changes

    -
    • Add the argument from_max_mean to mkinfit, for fitting only the decline from the maximum observed value for models with a single observed variable
      • -
    +

    Minor changes

    mkin 0.9-40 (2015-07-21)

    Bug fixes

    • -endpoints(): For DFOP and SFORB models, where optimize() is used, make use of the fact that the DT50 must be between DT50_k1 and DT50_k2 (DFOP) or DT50_b1 and DT50_b2 (SFORB), as optimize() sometimes did not find the minimum. Likewise for finding DT90 values. Also fit on the log scale to make the function more efficient.
      • -
    +endpoints(): For DFOP and SFORB models, where optimize() is used, make use of the fact that the DT50 must be between DT50_k1 and DT50_k2 (DFOP) or DT50_b1 and DT50_b2 (SFORB), as optimize() sometimes did not find the minimum. Likewise for finding DT90 values. Also fit on the log scale to make the function more efficient.

    Internal changes

    +DESCRIPTION, NAMESPACE, R/*.R: Import (from) stats, graphics and methods packages, and qualify some function calls for non-base packages installed with R to avoid NOTES made by R CMD check –as-cran with upcoming R versions.

    mkin 0.9-39 (2015-06-26)

    @@ -389,8 +401,7 @@

    Bug fixes

    • -mkinparplot(): Fix the x axis scaling for rate constants and formation fractions that got confused by the introduction of the t-values of transformed parameters.
      • -
    +mkinparplot(): Fix the x axis scaling for rate constants and formation fractions that got confused by the introduction of the t-values of transformed parameters.

    mkin 0.9-38 (2015-06-24)

    @@ -402,8 +413,7 @@

    Bug fixes

    • -mkinmod(): When generating the C code for the derivatives, only declare the time variable when it is needed and remove the ‘-W-no-unused-variable’ compiler flag as the C compiler used in the CRAN checks on Solaris does not know it.
      • -
    +mkinmod(): When generating the C code for the derivatives, only declare the time variable when it is needed and remove the ‘-W-no-unused-variable’ compiler flag as the C compiler used in the CRAN checks on Solaris does not know it.

    mkin 0.9-36 (2015-06-21)

    @@ -416,15 +426,13 @@

    Minor changes

    -
    +

    mkin 0.9-35 (2015-05-15)

    Major changes

    -
    • Switch from RUnit to testthat for testing
      • -
    +

    Bug fixes

    mkin 0.9-30 (2014-07-11)

    New features

    -
    • It is now possible to use formation fractions in combination with turning off the sink in mkinmod().
      • -
    +

    Major changes

    -

    Site built with pkgdown 2.0.2.

    +

    Site built with pkgdown 2.0.6.

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