Age | Commit message (Collapse) | Author | Files | Lines | |
---|---|---|---|---|---|
2022-11-16 | Update DESCRIPTION and NEWS, check and test | Johannes Ranke | 1 | -18/+18 | |
2022-11-16 | Address platform dependence that surfaced on winbuilder | Johannes Ranke | 1 | -23/+23 | |
2022-11-15 | Import saemix for easier profiling, update online docs | Johannes Ranke | 1 | -8/+8 | |
2022-11-14 | Automatic starting parameters for saem.mmkin | Johannes Ranke | 1 | -16/+16 | |
For the case of mkin transformations. This gives faster convergence, and appears to avoid problems with numeric ODE solutions | |||||
2022-11-08 | Show DFOP g equivalent of SFORB in summary, test | Johannes Ranke | 1 | -13/+13 | |
2022-11-08 | Simplify SFORB also in the endpoint function | Johannes Ranke | 1 | -13/+13 | |
2022-11-08 | Simplify SFORB analytical solution, whitespace | Johannes Ranke | 1 | -20/+20 | |
I do not know why the formulae for b1 and b2 on page 64 of FOCUS kinetics (2014) were not simplified. Clearly, the term k12 * k21 - (k12 + k1output) * k21) can be simplified to - k1output * k21 The test for equivalence of DFOP and SFORB fits verifies that the change is OK. I also removed trailing whitespaces, substituted tab characters by two whitespaces and removed indenting of text in paragraphs describing parameters in roxygen comments to unify formatting. | |||||
2022-11-04 | Attempt at automatic setting of random effects | Johannes Ranke | 1 | -19/+19 | |
Based on parameters in the separate fits that fail the t-test. | |||||
2022-11-01 | Fix plotting saem fits with covariates | Johannes Ranke | 1 | -9/+9 | |
2022-11-01 | Fix illparms tests | Johannes Ranke | 1 | -45/+12 | |
2022-11-01 | Improved printing for illparms() | Johannes Ranke | 1 | -14/+47 | |
For the case of single fits and no ill-defined parameters found | |||||
2022-10-31 | Fix R CMD check | Johannes Ranke | 1 | -10/+10 | |
2022-10-29 | Another attempt to make the test robust | Johannes Ranke | 1 | -18/+18 | |
As the last update failed on travis. Now we should be more robust, as rounding to one digit works better when parameters are log-transformed (mkin transformations) in the output. | |||||
2022-10-28 | Rename parhist to parplot and make it generic | Johannes Ranke | 1 | -21/+21 | |
That parhist name was not the brightest idea, as it does not show histograms. | |||||
2022-10-28 | Export status method for mhmkin, move to status.R | Johannes Ranke | 1 | -20/+20 | |
2022-10-28 | Update test to renamed method | Johannes Ranke | 1 | -13/+13 | |
2022-10-26 | Really test anova output, test covariates | Johannes Ranke | 1 | -11/+11 | |
2022-10-26 | Reduced sfo model for multistart.saem.mkin tests | Johannes Ranke | 1 | -13/+13 | |
2022-10-26 | Remove kernel density estimate from llhist | Johannes Ranke | 1 | -15/+15 | |
2022-10-26 | Try to make multistart (more) reproducible | Johannes Ranke | 1 | -9/+9 | |
2022-10-26 | Tests pass locally | Johannes Ranke | 1 | -21/+19 | |
2022-10-26 | Make multistart work with testthat scopes | Johannes Ranke | 1 | -12/+20 | |
Also skip long-running test with saem using the analytical from mkin | |||||
2022-10-25 | Change DFOP mixed model data in tests, updates | Johannes Ranke | 1 | -12/+12 | |
2022-10-25 | Complete documentation and fix a bug | Johannes Ranke | 1 | -11/+11 | |
The bug was introduced by the changes in summary.saem.mmkin.R and surfaced in the tests when using saemix transformations. | |||||
2022-10-17 | SFORB in saem, update for mhmkin and multistart | Johannes Ranke | 1 | -8/+8 | |
2022-10-14 | Select best fit from multistart, use in parhist | Johannes Ranke | 1 | -13/+13 | |
- Add 'best' and 'which.best' generics with methods for multistart objects - Per default, scale the parameters in parhist plots using the fit with the highest log likelihood. | |||||
2022-10-05 | Simplify the removal of random effects | Johannes Ranke | 1 | -10/+10 | |
This is achieved by introducing the argument 'no_random_effect' to the saem function. | |||||
2022-09-30 | Test the package with saemix development version | Johannes Ranke | 1 | -43/+12 | |
2022-09-29 | Add set_nd_nq previously in pfm | Johannes Ranke | 1 | -14/+46 | |
pfm depends on mkin anyways, so reexporting set_nd_nq and set_nd_nq_focus in pfm should provide reasonable continuity. | |||||
2022-09-16 | Rerun test with saemix 3.1 from CRAN | Johannes Ranke | 1 | -10/+10 | |
Apparently, the change I introduced into saemix saemixdevelopment/saemixextension#34 to fix error model parameters to positive values slightly influences the results. So this is now with the CRAN version to keep test results in sync with Travis | |||||
2022-09-16 | Diagnostic plots for multistart method | Johannes Ranke | 1 | -14/+14 | |
2022-08-10 | Batch processing for hierarchical fits | Johannes Ranke | 1 | -10/+11 | |
- 'R/mhmkin.R': New method for performing multiple hierarchical mkin fits in one function call, optionally in parallel. - 'R/saem.R': 'logLik' and 'update' methods for 'saem.mmkin' objects. - 'R/illparms.R': Add methods for 'saem.mmkin' and 'mhmkin' objects. tests: Use 2 cores on travis, should work according to docs | |||||
2022-08-08 | Error on unsupported saemix transformations | Johannes Ranke | 1 | -9/+9 | |
Also, support FOMC with saemix transformations | |||||
2022-08-08 | Fix fitting HS with saemix transformations | Johannes Ranke | 1 | -12/+10 | |
2022-07-22 | Move logs into own directory to clean root | Johannes Ranke | 1 | -0/+51 | |