mkin - Fitting kinetic models to chemical degradation data (also on github)

Age	Commit message (Collapse)	Author	Files	Lines
2020-11-07	Create saem generic for fitting saemix models	Johannes Ranke	2	-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.
2020-11-06	Update benchmarks for dev version	Johannes Ranke	4	-69/+129

2020-11-06	Fast analytical solutions for saemix, update.mmkin	Johannes Ranke	40	-406/+972
	Also, use logit transformation for g and for solitary formation fractions, addressing #10.
2020-11-05	Fix link and update docs	Johannes Ranke	8	-93/+117

2020-10-27	Add summary method for nlme.mmkin objects	Johannes Ranke	9	-48/+535
	Improve and update docs
2020-10-26	Put the legend in its own area for plot.nlme.mmkin	Johannes Ranke	15	-80/+74

2020-10-24	Fix a bug for nlme with parent only, improve examples	Johannes Ranke	10	-89/+14

2020-10-24	Improve plot layout	Johannes Ranke	4	-17/+6

2020-10-24	Plot method for nlme.mmkin objects	Johannes Ranke	11	-76/+351
	Update docs
2020-10-22	Really fix check for nlme::varConstProp	Johannes Ranke	2	-4/+49
	And add output for nlme fit translating the mkinfit error model "obs" into nlme::varIdent().
2020-10-22	Fix check for nlme::varConstProp	Johannes Ranke	2	-1/+1

2020-10-22	Update pkgdown docs	Johannes Ranke	22	-113/+201

2020-10-15	More gentle example for saemix with combined error model	Johannes Ranke	9	-47/+43

2020-10-15	Updating docs of current dev version	Johannes Ranke	34	-154/+456

2020-10-08	Fix another URL, add devcheck targetv0.9.50.3	Johannes Ranke	7	-10/+10

2020-10-08	Fix issues for release	Johannes Ranke	69	-1129/+799

2020-05-27	Improve mkinmod docs	Johannes Ranke	2	-33/+57

2020-05-27	Change dev version label to info color	Johannes Ranke	24	-94/+94
	instead of the orange danger color.
2020-05-27	Create up to date pkgdown docs in development mode	Johannes Ranke	184	-0/+24656