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This also adds the first benchmark results obtained on my laptop system
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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).
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In residual plots, use xlab and xlim if appropriate
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Also bump version to 1.0.3.
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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.
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- 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
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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.
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Also the documentation was improved here and there
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The likelihood ratio test method is lrtest, in addition,
methods for update and residuals were added.
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Static documentation rebuilt by pkgdown
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Only on Linux at the moment. Some more examples in the help page.
Remove the distribution argument for the quadratic method
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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
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Static documentation rebuilt by pkgdown
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