Age | Commit message (Collapse) | Author | Files | Lines | |
---|---|---|---|---|---|
2016-03-23 | Added 'from_max_mean' to 'mkinfit'. | Johannes Ranke | 1 | -1/+14 | |
- Now it is easier to do decline kinetics from the maximum occurrence - Static documentation rebuilt by staticdocs::build_site() - Fixed an URL in the README, thanks to the win-builder check with R-devel | |||||
2015-12-10 | Improve print method for mkinmod | Johannes Ranke | 1 | -2/+3 | |
2015-12-09 | Improve mkinmod error message for missing target compartment definition | Johannes Ranke | 1 | -0/+1 | |
Closes #6. | |||||
2015-11-06 | Improve formatting of summary | Johannes Ranke | 1 | -4/+4 | |
2015-10-24 | Improve printing method for mkinmod | Johannes Ranke | 1 | -1/+1 | |
2015-10-24 | Sort sampling times in mkinds | Johannes Ranke | 1 | -1/+1 | |
2015-10-21 | Avoid an error printing old mkinfit summaries | Johannes Ranke | 1 | -5/+10 | |
2015-10-19 | Add the R6 class mkinds | Johannes Ranke | 1 | -1/+1 | |
2015-10-19 | Make plot.mkinfit work with models where full_name components are NULL | Johannes Ranke | 2 | -0/+67 | |
2015-10-19 | Add a print method for mkinmod objects | Johannes Ranke | 1 | -0/+16 | |
2015-10-16 | Full compound names in models that are shown in the plot | Johannes Ranke | 2 | -5/+9 | |
2015-07-20 | Avoid error message for SFORB in endpoints, updates | Johannes Ranke | 1 | -7/+14 | |
2015-06-30 | Improve calculation of DT90 in endpoints(), check and test | Johannes Ranke | 1 | -16/+22 | |
2015-06-30 | Start to import or qualify functions from stats, utils et al. | Johannes Ranke | 2 | -3/+3 | |
2015-06-26 | Fix x axis scaling in mkinparplot | Johannes Ranke | 1 | -1/+1 | |
2015-06-26 | Subsetting and plotting for mmkin objects | Johannes Ranke | 2 | -0/+107 | |
Including documentation and documentation improvements for mmkin(). | |||||
2015-06-25 | Fix fitting with parLapply, doc fix | Johannes Ranke | 1 | -1/+1 | |
2015-06-25 | Add mmkin for testing | Johannes Ranke | 1 | -0/+46 | |
2015-06-23 | Hopefully fix compiling on Solaris, verbose option | Johannes Ranke | 1 | -11/+23 | |
- Only declare the time variable in the C code when needed in the derivatives. - Add the option to show verbose output of cfunction() when compiling the model to a shared library. | |||||
2015-06-21 | Do the t-test for untransformed parametersv0.9-36 | Johannes Ranke | 1 | -18/+71 | |
2015-06-20 | Suppress compiler warning for sometimes unused time variable | Johannes Ranke | 1 | -1/+3 | |
2015-06-20 | Low-level generation of compiled models | Johannes Ranke | 7 | -62/+104 | |
As it is unclear if and when ccSolve will be published on CRAN, the generation, compilation and use of the C version of the system of differential equations was developed for mkin, inspired and guided by the code from the ccSolve package. Many thanks again to Karline Soetaert for all of her work on this and other R packages. Now all model types, including the Hockey-Stick model for the parent compund and the IORE model for parent and/or metabolites can be compiled. | |||||
2015-05-15 | Make mkinmod quiet in tests | Johannes Ranke | 1 | -4/+4 | |
2015-04-18 | Add a vignette showing the performance of compiled models | Johannes Ranke | 1 | -3/+6 | |
2015-04-17 | Make compiled FOMC and DFOP models work | Johannes Ranke | 1 | -5/+4 | |
- Many thanks @karlines for the hint in ccSolve#1 how to declare the time variable and for writing the ccSolve package in the first place - Add tests for the compiled versions of the FOMC and DFOP models | |||||
2015-04-16 | Order of parameters needs to be right for compiled models | Johannes Ranke | 1 | -1/+1 | |
2015-04-16 | Update copyright header, improve documentation of solution_type | Johannes Ranke | 3 | -14/+19 | |
2015-04-16 | Check compiled mkinmod versions in examples and tests | Johannes Ranke | 2 | -1/+5 | |
Tests all pass (Linux) | |||||
2015-04-14 | Compile differential equation models with ccSolve package | Johannes Ranke | 2 | -9/+47 | |
If the ccSolve package is available, and time is not in the right hand side of the equations (i.e. if only SFO and SFORB models are used), the differential equation model is compiled from auto-generated C code. Currently, one test (FOCUS 2006 D SFO_SFO) fails | |||||
2015-02-21 | Avoid NOTES in R CMD check | Johannes Ranke | 1 | -1/+1 | |
- Export S3 methods - Avoid using undeclared variable names | |||||
2015-02-20 | Add termination message to mkinfit, prepare release | Johannes Ranke | 1 | -1/+9 | |
2015-02-20 | Fix printing the summary if iterations are not available | Johannes Ranke | 1 | -1/+4 | |
This was broken for using method.modFit = "SANN" | |||||
2014-11-23 | Simply get rid of the warnings when drawing arrows | Johannes Ranke | 1 | -8/+7 | |
2014-11-23 | Avoid spurious warning in mkinparplot, bump version | Johannes Ranke | 1 | -4/+10 | |
2014-11-12 | Fix for IORE in mkinmod | Johannes Ranke | 1 | -4/+4 | |
2014-11-12 | IORE working for parent and metabolites, introduce mkinsub | Johannes Ranke | 3 | -4/+33 | |
2014-11-12 | Merge branch 'master' into iore | Johannes Ranke | 5 | -66/+167 | |
2014-11-12 | Fix a typo in the list of possible arguments | Johannes Ranke | 1 | -1/+1 | |
Thanks to Michael Brauer for the hint | |||||
2014-10-22 | Always include 0 on y axis when plotting during the fit | Johannes Ranke | 1 | -1/+1 | |
2014-10-15 | Switch to using the Port algorithm per default | Johannes Ranke | 1 | -1/+1 | |
2014-10-14 | Further formatting improvement for differential equations | Johannes Ranke | 1 | -1/+1 | |
2014-10-06 | Avoid a warning produced by initial fits in gmkin | Johannes Ranke | 1 | -7/+9 | |
2014-08-29 | Avoid an unnecessary warning | Johannes Ranke | 1 | -1/+1 | |
2014-08-25 | Bug fix and unit tests for mkinerrmin | Johannes Ranke | 1 | -4/+5 | |
See NEWS.md for details | |||||
2014-08-20 | Fix mkinfit for a special situation | Johannes Ranke | 1 | -7/+7 | |
See NEWS.md: When the parent was not the (only) variable with the highest value out of all variables in the observed data, it could happen that the initial value (state.ini) was not initialised. | |||||
2014-08-19 | Improve formatting of differential equations in output | Johannes Ranke | 1 | -1/+1 | |
Rebuild of FOCUS_Z vignette with improved formatting | |||||
2014-07-25 | Fix internal naming of g for transform_fractions=FALSE | Johannes Ranke | 1 | -2/+13 | |
2014-07-24 | Bump version, better default for state.ini | Johannes Ranke | 1 | -2/+8 | |
2014-07-24 | Avoid artificial zero residual in mkinresplot | Johannes Ranke | 1 | -1/+2 | |
2014-07-23 | Parallel metabolite formation with formation fractions in mkinerrmin | Johannes Ranke | 1 | -3/+4 | |