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2015-05-19Include output in README, use mkinsub() in example codeJohannes Ranke2-15/+33
2015-05-18Make checking faster, testing is done by testsJohannes Ranke3-13/+10
2015-05-15Merge branch 'master' into compile_odesJohannes Ranke1-0/+1
2015-05-15Reduce time to run mkinfit exampleJohannes Ranke1-0/+2
2015-05-15Make mkinmod quiet in testsJohannes Ranke1-1/+4
2015-05-15Merge branch 'master' into compile_odesJohannes Ranke1-0/+65
Conflicts (resolved manually, deleting code that I had integrated into the RUnit tests for testing the compiled version): .gitignore DESCRIPTION inst/unitTests/runit.mkinerrmin.R inst/unitTests/runit.mkinfit.R tests/testthat/test_mkinpredict_SFO_SFO.R vignettes/FOCUS_L.html
2015-05-15Add synthetic data generated for UBA expertise, testsJohannes Ranke1-0/+65
The new tests are based on the results documented in the expertise I wrote for the UBA (currently unpublished).
2015-04-18Add a vignette showing the performance of compiled modelsJohannes Ranke2-7/+11
2015-04-16Update copyright header, improve documentation of solution_typeJohannes Ranke1-2/+3
2015-04-16Check compiled mkinmod versions in examples and testsJohannes Ranke2-4/+41
Tests all pass (Linux)
2015-04-16Correctly close braces of examples sectionJohannes Ranke1-0/+1
2015-04-14Compile differential equation models with ccSolve packageJohannes Ranke1-2/+3
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
2014-11-23Use model as in the original publicationJohannes Ranke1-1/+1
2014-11-13Fix code/documentation mismatchJohannes Ranke1-2/+2
2014-11-13Expand the IORE example a bitJohannes Ranke1-3/+4
2014-11-12Add a hint about equivalence of FOMC and IORE modelsJohannes Ranke1-0/+2
2014-11-12Add an IORE example for parent decline kineticsJohannes Ranke1-0/+4
2014-11-12Fix for IORE in mkinmodJohannes Ranke1-0/+5
2014-11-12Merge branch 'master' of https://github.com/jranke/mkin into ioreJohannes Ranke1-1/+1
2014-11-12IORE working for parent and metabolites, introduce mkinsubJohannes Ranke2-0/+50
2014-11-12Fix the typo in the help page, tooJohannes Ranke1-1/+1
2014-11-12Merge branch 'master' into ioreJohannes Ranke4-23/+60
2014-10-29Correct name of the DFOP model according to FOCUS kineticsJohannes Ranke1-1/+1
2014-10-15Switch to using the Port algorithm per defaultJohannes Ranke1-12/+12
2014-10-14Add a comment about transforming fractionsJohannes Ranke1-4/+10
2014-08-25Bug fix and unit tests for mkinerrminJohannes Ranke1-0/+10
See NEWS.md for details
2014-07-24Improve formulationJohannes Ranke1-1/+1
2014-07-24Semantic correction in help fileJohannes Ranke1-1/+1
2014-07-24Bump version, better default for state.iniJohannes Ranke1-0/+1
2014-07-21Bugfix, model shorthand, state.ini[[1]] from observed dataJohannes Ranke2-7/+17
- The bug occurred when using transform_rates=FALSE for FOMC, DFOP or HS - Make it possible to use mkinfit("SFO", ...) - Take initial mean value at time zero for the variable with the highest value in the observed data - Update of vignette/FOCUS_L - Improve the Makefile to build single vignettes
2014-07-17Handle non-convergence and maximum number of iterationsJohannes Ranke1-4/+14
For details see NEWS.md
2014-07-14Nearly complete support for IORE, pending mkinerrminJohannes Ranke2-12/+33
2014-07-14Merge bugfix release 0.9-31 from 'master' into ioreJohannes Ranke1-1/+1
2014-07-12First working fits with IORE modelJohannes Ranke3-3/+38
2014-07-11It is B. Mikolasch, not M. Mikolasch...Johannes Ranke1-1/+1
2014-07-02Support formation fractions without sink pathway, updatesJohannes Ranke3-16/+52
2014-06-26Fix naming of SFORB DT50_bx values, fix docsJohannes Ranke1-1/+1
2014-06-26Calculate additional DT50 values for non-SFO modelsJohannes Ranke1-5/+1
2014-06-26Add function for geometric meanJohannes Ranke1-0/+23
2014-06-26Start new version, add xlim to mkinresplotJohannes Ranke1-0/+4
2014-05-20Step back regarding confidence intervals of formation fractionsJohannes Ranke1-3/+3
- Don't give confidence intervals for formation fractions that belong to a set, only for single formation fractions - Update the vignette with history and background - Correct 'isotropic' into 'isometric' in the ilr documentation, the README and the comments in transform_odeparms - Candidate for release to CRAN
2014-05-07Fork the GUI into package gmkin. See ChangeLog for detailsJohannes Ranke3-77/+0
2014-05-02Add missing files for plotting confindence intervalsJohannes Ranke1-0/+35
2014-04-29Reformat McCall data to have one Rd file per objectJohannes Ranke2-35/+42
2014-04-28Adapt the documentation for the HS modelJohannes Ranke1-1/+2
2014-04-28Option to add residual plot to plot.mkinfitJohannes Ranke2-6/+19
2014-04-26Fix the default case for obs_vars in plot.mkinfit()Johannes Ranke1-2/+3
2014-04-26Enable selection of observed variables to plotJohannes Ranke1-11/+17
2014-04-25McCall 2,4,5-T dataset, lower bound for transform_rates=FALSEJohannes Ranke2-0/+36
2014-04-22Possibility to fit without parameter transformationJohannes Ranke2-9/+44

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