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2023-05-19Prepare release of v1.2.4v1.2.4Johannes Ranke1-4/+4
- Update DESCRIPTION - Update Makefile to document how to use R-patched - Remove markup from two URLs to avoid CRAN NOTE - Switch two vignettes from html_document to html_vignette to save space in the docs directory, also avoiding a CRAN NOTE - Complete rebuild of pkgdown docs for release
2023-04-20Fix and rebuild documentation, see NEWSJohannes Ranke1-13/+30
I had to fix the two pathway vignettes, as they did not work with the released version any more. So they and the multistart vignette which got some small fixes as well were rebuilt. Complete rebuild of the online docs with the released version. The documentation of the 'hierarchial_kinetics' format had to be fixed as well.
2022-11-17Complete update of online docs for v1.2.0Johannes Ranke1-63/+74
2022-05-18Remove outdated comment in FOCUS L vignette, update docsJohannes Ranke1-1/+1
This also adds the first benchmark results obtained on my laptop system
2022-03-07Remove nlmixr interface for release of mkin 1.1.0Johannes Ranke1-1/+1
I am postponing my attempts to get the nlmixr interface to CRAN, given some problems with nlmixr using R-devel under Windows, see https://github.com/nlmixrdevelopment/nlmixr/issues/596 and https://github.com/r-hub/rhub/issues/512, which is fixed by the removal of nlmixr from the testsuite. For the tests to be more platform independent, the biphasic mixed effects models test dataset was defined in a way that fitting should be more robust (less ill-defined).
2022-03-02Make tests more platform independent, update docsJohannes Ranke1-191/+121
2021-10-01Update online docs to 1.0.5Johannes Ranke1-1/+1
2021-03-31Bug fix in plot.mkinfitJohannes Ranke1-1/+1
In residual plots, use xlab and xlim if appropriate
2021-02-15Improve README, introductory vignette and some other docsv1.0.3Johannes Ranke1-1/+1
Also bump version to 1.0.3.
2021-02-03Prepare for v1.0.0v1.0.0Johannes Ranke1-18/+21
- Improve authorship and copyright information - Prepare pkgdown config - Remove dependence on saemix as we need the development version which is not ready for CRAN - Temporarily remove saemix interface to check code coverage of the rest
2020-10-15Update online docs for release versionJohannes Ranke1-52/+57
2020-05-27Add docs generated using released version 0.9.52Johannes Ranke1-17/+14
2020-05-26Use all cores per default, confint toleranceJohannes Ranke1-2/+2
Also, use more intelligent starting values for the variance of the random effects for saemix. While this does not appear to speed up the convergence, it shows where this variance is greatly reduced by using mixed-effects models as opposed to the separate independent fits.
2020-05-14Test markdown link, article update due to .rmd extensionJohannes Ranke1-11/+14
2020-05-12Update vignettes and docsJohannes Ranke1-1/+1
2020-05-12Documentation improvements, rebuild static docsJohannes Ranke1-4/+4
2020-05-07Another overhaul of analytical solutionsJohannes Ranke1-36/+39
Still in preparation for analytical solutions of coupled models
2020-04-15Include random effects in starting parametersJohannes Ranke1-64/+16
- mean_degparms() now optionally returns starting values for fixed and random effects, which makes it possible to obtain acceptable fits also in more difficult cases (with more parameters) - Fix the anova method, as it is currently not enough to inherit from lme: https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17761 - Show fit information, and per default also errmin information in plot.nlme.mmkin() - Examples for nlme.mmkin: Decrease tolerance and increase the number of iterations in the PNLS step in order to be able to fit FOMC-SFO and DFOP-SFO
2020-04-15A plot method for nlme.mmkin fitsJohannes Ranke1-15/+17
2020-04-14Keep order of datasets in nlme_data, add a plotJohannes Ranke1-2/+34
2020-04-10Improve nlme function docsJohannes Ranke1-12/+102
2020-04-04Static documentation rebuilt by pkgdownJohannes Ranke1-0/+199

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