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2023-05-19Prepare release of v1.2.4v1.2.4Johannes Ranke1-1/+1
- 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 Ranke1-12/+33
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.
2022-11-18Update docsJohannes Ranke1-3/+7
2022-11-17Complete update of online docs for v1.2.0Johannes Ranke1-15/+53
2022-08-10Update static docsJohannes Ranke1-18/+28
2022-07-22Update static docsJohannes Ranke1-1/+13
2022-07-08Store DLL info in mkinmod objects for performanceJohannes Ranke1-1/+1
Thanks to Tomas Kalibera for his analysis of the problem on the r-package-devel mailing list and for the suggestion on how to fix it. See the current benchmark vignette for the new data on mkin 1.1.1 with R 4.2.1, with unprecedented performance.
2022-07-01Add R version to data in benchmark vignetteJohannes Ranke1-1/+1
2022-05-18Remove outdated comment in FOCUS L vignette, update docsJohannes Ranke1-1/+1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 Ranke1-17/+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 Ranke1-427/+156
2021-10-01Update online docs to 1.0.5Johannes Ranke1-1/+1
2021-02-24Rebuild docsJohannes Ranke1-1/+1
2021-02-15Improve README, introductory vignette and some other docsv1.0.3Johannes Ranke1-1/+1
Also bump version to 1.0.3.
2021-02-13Update for gmkin 0.6.12v1.0.2Johannes Ranke1-1/+1
mkinfit: Keep model names stored in mkinmod objects, avoiding their loss in gmkin
2021-02-04Documentation improvements, mainly fixing example codeJohannes Ranke1-8/+2
The errors in the example code were in the \dontrun sections, so they were not caught by CRAN checks. In addition, the static help files generated with pkgdown were cached, so I noticed the errors only after completely regenerating the documentation for version 1.0.0.
2021-02-03Prepare for v1.0.0v1.0.0Johannes Ranke1-27/+70
- 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 Ranke1-3/+6
2020-05-27Add docs generated using released version 0.9.52Johannes Ranke1-10/+1
2020-05-25First working version of saemix helper functionsJohannes Ranke1-0/+6
saemix_data depends on a development version of saemix, see pull request saemixdevelopment/saemixextension#2
2020-05-14Update version number, better example formattingJohannes Ranke1-1/+1
2020-05-12Add a link to the benchmark vignette to the docsJohannes Ranke1-0/+3
2020-05-12Improve documentation, now using a spell checkerJohannes Ranke1-1/+1
2020-05-11Add analytical solution for DFOP-SFOJohannes Ranke1-1/+1
This is about twice as fast as deSolve compiled in the case of FOCUS D
2020-05-11Avoid merge() and data.frame() in cost functionJohannes Ranke1-0/+6
also for deSolve and eigenvalue based solutions. This noticeably increases performance for these methods, see test.log and benchmark vignette.
2020-05-07Another overhaul of analytical solutionsJohannes Ranke1-2/+2
Still in preparation for analytical solutions of coupled models
2020-05-07Static documentation rebuilt by pkgdownJohannes Ranke1-26/+75
2020-04-20Prepare release to address failed CRAN checkJohannes Ranke1-1/+1
2020-04-18Avoid assignment to .GlobalEnv for CRANJohannes Ranke1-0/+6
2020-04-15Include random effects in starting parametersJohannes Ranke1-1/+1
- 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 Ranke1-1/+22
2020-04-10Improve nlme function docsJohannes Ranke1-2/+2
2020-04-04Static documentation rebuilt by pkgdownJohannes Ranke1-0/+6
2020-01-09Remove unused FME package from DESCRIPTION textJohannes Ranke1-1/+1
2019-12-09Consistently use "two-component error model"Johannes Ranke1-1/+1
instead of "two component error model"
2019-11-13Calculate Akaike weightsJohannes Ranke1-0/+6
2019-11-13Likelihood ratio test for mmkin columns with two fitsJohannes Ranke1-1/+1
2019-11-09Add a lack-of-fit testJohannes Ranke1-0/+6
- Switch an example dataset in the test setup to a dataset with replicates, adapt tests - Skip the test for lrtest with an update specification as it does not only fail when pkgdown generates static help pages, but also in testthat
2019-11-01Make the 'quadratic' the default for 'confint'Johannes Ranke1-1/+1
Also the documentation was improved here and there
2019-11-01Fix bug in yesterdays release, add methods for BICJohannes Ranke1-3/+9
2019-10-31Add likelihood ratio test and other methods, fixesJohannes Ranke1-24/+42
The likelihood ratio test method is lrtest, in addition, methods for update and residuals were added.
2019-10-26Fix checks and testsJohannes Ranke1-6/+18
Static documentation rebuilt by pkgdown
2019-10-25Static documentation rebuilt by pkgdownJohannes Ranke1-15/+11
2019-10-21Static documentation rebuilt by pkgdownJohannes Ranke1-1/+4
2019-10-21Improve some plotting routines, more testsJohannes Ranke1-1/+1
Static documentation rebuilt by pkgdown
2019-10-21Static documentation rebuilt by pkgdownJohannes Ranke1-6/+0
2019-09-19Static documentation rebuilt by pkgdownJohannes Ranke1-1/+1
Use lazy = TRUE in the pd target for generating pkgdown documentation
2019-09-18Correct and rebuild docsJohannes Ranke1-7/+15
- Reconcile docs and code for max_twa_parent - Correct links to docs in twa vignette - Static documentation rebuilt by pkgdown
2019-07-05Static documentation rebuilt by pkgdownJohannes Ranke1-1/+1
2019-07-03Update DESCRIPTION, improve NEWSJohannes Ranke1-1/+1
Static documentation rebuilt by pkgdown

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