mkin/docs/dev/sitemap.xml, branch v1.0.3Fitting kinetic models to chemical degradation data (also on github)https://erac.jrwb.de/mkin/atom?h=v1.0.32020-12-19T11:24:43ZUpdate docs2020-12-19T11:24:43ZJohannes Rankejranke@uni-bremen.de2020-12-19T11:24:43Zurn:sha1:e2aa453b1d5535ceb2d0d7b042d2c3b68c6298d1Update static docs2020-12-11T14:39:43ZJohannes Rankejranke@uni-bremen.de2020-12-11T14:39:43Zurn:sha1:c6a1733974334b4e97a27170c60e481dc9e9f35dDepend on parallel, doc improvements2020-11-19T14:41:24ZJohannes Rankejranke@uni-bremen.de2020-11-19T14:41:24Zurn:sha1:db9ae6a0c9cecb92048fde6f06af1da183c09b5f
By depending on parallel instead of importing it, functions to set up
and stop a cluster are always available when mkin is loaded.
The use of multicore processing in mmkin on Windows is now documented in
the help file, which brings mkin closer to a version 1.0 #9.
saemix.mmkin and nlme.mmkin inherit from mixed.mmkin2020-11-09T16:24:53ZJohannes Rankejranke@uni-bremen.de2020-11-09T16:24:53Zurn:sha1:aa74f5a30853fb0a15c99c283e072f08ee819149
With a plot method. The class mixed.mmkin is currently only a virtual
class created to unify the plotting method.
Merge plot methods for nlme.mmkin and saem.mmkin2020-11-09T15:33:19ZJohannes Rankejranke@uni-bremen.de2020-11-09T15:33:19Zurn:sha1:a1631098acfc3352e19c331e568bd6f5766b3c3d
This avoids code duplication
Add plot method for saem.mmkin objects2020-11-09T13:23:16ZJohannes Rankejranke@uni-bremen.de2020-11-09T13:23:16Zurn:sha1:6464d3999338d34c081f360694dbc0bc0abf68cbUpdate static docs2020-11-08T01:59:07ZJohannes Rankejranke@uni-bremen.de2020-11-08T01:59:07Zurn:sha1:1c647363430e0db732c23feebe4293dc48978608Create saem generic for fitting saemix models2020-11-07T11:54:58ZJohannes Rankejranke@uni-bremen.de2020-11-07T11:54:58Zurn:sha1:2e37905a7bf0d72751ee7326ef05a268989e49b2
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.
Add summary method for nlme.mmkin objects2020-10-27T14:36:46ZJohannes Rankejranke@uni-bremen.de2020-10-27T14:34:14Zurn:sha1:a5874ab7fce4616e80be69366ff0685332f47bf1
Improve and update docs
Plot method for nlme.mmkin objects2020-10-23T22:32:00ZJohannes Rankejranke@uni-bremen.de2020-10-23T22:32:00Zurn:sha1:dd80ab5d64bc6b56587b0542dc95e965a3a25590
Update docs