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2023-11-16Update pkgdown docs to bootstrap 5 with searchJohannes Ranke1-118/+87
2023-10-30Update static docsRanke Johannes1-3/+6
2023-05-19Prepare release of v1.2.4v1.2.4Johannes Ranke1-22/+22
- 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 Ranke1-11/+28
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 Ranke1-115/+146
2022-05-18Remove outdated comment in FOCUS L vignette, update docsJohannes Ranke1-24/+24
This also adds the first benchmark results obtained on my laptop system
2022-03-07Remove nlmixr interface for release of mkin 1.1.0Johannes Ranke1-3/+3
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 Ranke1-322/+258
2021-03-31Bug fix in plot.mkinfitJohannes Ranke1-3/+3
In residual plots, use xlab and xlim if appropriate
2021-02-15Improve README, introductory vignette and some other docsv1.0.3Johannes Ranke1-22/+22
Also bump version to 1.0.3.
2021-02-04Documentation improvements, mainly fixing example codeJohannes Ranke1-42/+43
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 Ranke1-55/+55
- 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 Ranke1-95/+124
2020-05-27Add docs generated using released version 0.9.52Johannes Ranke1-44/+34
2020-05-26Use all cores per default, confint toleranceJohannes Ranke1-5/+15
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.
2020-05-12Update vignettes and docsJohannes Ranke1-3/+3
2020-05-12Documentation improvements, rebuild static docsJohannes Ranke1-70/+94
2020-03-30Static documentation rebuilt by pkgdownJohannes Ranke1-60/+47
2019-11-04Include fixed parameters in model names in lrtestJohannes Ranke1-10/+10
2019-11-01Another documentation fixJohannes Ranke1-5/+4
2019-11-01Make the 'quadratic' the default for 'confint'Johannes Ranke1-45/+64
Also the documentation was improved here and there
2019-11-01Fix bug in yesterdays release, add methods for BICJohannes Ranke1-1/+1
2019-10-31Add likelihood ratio test and other methods, fixesJohannes Ranke1-2/+3
The likelihood ratio test method is lrtest, in addition, methods for update and residuals were added.
2019-10-29Return single parameters correctly from confintJohannes Ranke1-11/+22
Static documentation rebuilt by pkgdown
2019-10-28Parallel computation for confidence intervalsJohannes Ranke1-10/+113
Only on Linux at the moment. Some more examples in the help page. Remove the distribution argument for the quadratic method
2019-10-28Improve formattingJohannes Ranke1-2/+2
2019-10-28Fix the cutoff for likelihood based intervalsJohannes Ranke1-9/+22
The cutoff now matches what is given by Venzon and Moolgavkar (1988). Also, confidence intervals closely match intervals obtained with stats4::confint in the test case where an stats4::mle object is created from the likelihood function in one test case. Static documentation rebuilt by pkgdown
2019-10-26Fix checks and testsJohannes Ranke1-0/+252
Static documentation rebuilt by pkgdown

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