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2020-11-09Custom analytical solutions for saemixJohannes Ranke3-23/+59
Currently SFO-SFO and DFOP-SFO. Speed increase factor about 60
2020-11-08The call to saemix.predict fails with DFOP-SFOJohannes Ranke3-3/+3
2020-11-08Update static docsJohannes Ranke7-24/+482
2020-11-07Update static docs for dev versionJohannes Ranke9-121/+450
2020-11-07Create saem generic for fitting saemix modelsJohannes Ranke2-2/+2
The reasons for this decision were - Creating an saemix generic in the saemix package caused problems with roxygen, because functions like saemix.plot.xy were documented in their help files as S3 methods, although explicitly exported with @export - Creating an saemix generic in this package is possible, but would make it necessary to load samix with exclude = "saemix" in order to avoid overwriting the generic when loading saemix. - The return object of such an saemix generic in this package cannot be an S3 class with class attribute c("saemix.mmkin", "SaemixObject") similar to nlme.mmkin, as saemix returns an S4 class. - Extending the S4 class SaemixObject using simple inheritance to a class SaemixMmkinObject with additional slots did not work as expected. When the initialize method was left untouched, it prevented creation of an SaemixMmkinObject even if it was based on an initialised SaemixObject, as the initialize method seems to always be called by new(). This could potentially be circumvented by a coerce method. If an alternative initialize method was used, an SaemixMmkinObject could be created. However, the methods written for SaemixObjects only worked in some instances, either because they checked for the class, and not for class inheritance (like compare.saemix), or because the initialize method was called for some reason. Therefore, the idea of creating a derived S4 class was abandoned. - A side effect of this decision is that the introduction of the saem generic opens the possibility to use the same generic also for other backends like nlmixr with the SAEM algorithm.
2020-11-06Update benchmarks for dev versionJohannes Ranke4-69/+129
2020-11-06Fast analytical solutions for saemix, update.mmkinJohannes Ranke40-406/+972
Also, use logit transformation for g and for solitary formation fractions, addressing #10.
2020-11-05Fix link and update docsJohannes Ranke8-93/+117
2020-10-27Add summary method for nlme.mmkin objectsJohannes Ranke9-48/+535
Improve and update docs
2020-10-26Put the legend in its own area for plot.nlme.mmkinJohannes Ranke15-80/+74
2020-10-24Fix a bug for nlme with parent only, improve examplesJohannes Ranke10-89/+14
2020-10-24Improve plot layoutJohannes Ranke4-17/+6
2020-10-24Plot method for nlme.mmkin objectsJohannes Ranke11-76/+351
Update docs
2020-10-22Really fix check for nlme::varConstPropJohannes Ranke2-4/+49
And add output for nlme fit translating the mkinfit error model "obs" into nlme::varIdent().
2020-10-22Fix check for nlme::varConstPropJohannes Ranke2-1/+1
2020-10-22Update pkgdown docsJohannes Ranke22-113/+201
2020-10-15More gentle example for saemix with combined error modelJohannes Ranke9-47/+43
2020-10-15Updating docs of current dev versionJohannes Ranke34-154/+456
2020-10-08Fix another URL, add devcheck targetv0.9.50.3Johannes Ranke7-10/+10
2020-10-08Fix issues for releaseJohannes Ranke69-1129/+799
2020-05-27Improve mkinmod docsJohannes Ranke2-33/+57
2020-05-27Change dev version label to info colorJohannes Ranke24-94/+94
instead of the orange danger color.
2020-05-27Create up to date pkgdown docs in development modeJohannes Ranke184-0/+24656

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