- Bug fixes - Fit and compete - fit total OD to total of competition model (699f8b6) - Lotka Volterra competition models (started at fbc6dc8) - New competitions model based on resource consumption (22d949c) - Smoothing is more stable and doesn't require parameters (97c64d4) - Fix definition of `q0` in docs - Measure minimal doubling time (7ffdd24; suggested by Idan Frumkin) - Measure confidence interval for max growth rate, lag, and min doubling time and report in CLI (d95bf3d and further commits afterwards) - Improved parameter guess functions (97c64d4, 0cecfaf) - Fit exponential model (523b30270ff6cd95d6702ed1b497e3f12655129b) - Support for Python 3.5 (4a1c5b8) - Moved docs from divshot to netlify (fbe022d)
0.2.3
- each growth model is now a separate class - new growth model: Baranyi-Roberts with v=r (nu is free) - fit to full data instead of just weights - quantifiedcode integration - guessing nu gives false results, set it to 1 - fix D calculation in `lrtest` to be numerically stable - refactor `calc_weights` - added more competition models - residuals plots much improved, added model residuals plot - sample y0 in `compete` - bootstrap sampling of model parameters - `fit_model` accepts name of fitting method - new module for likelihood analysis - read and write csv files in Curveball format - allow `none` blank in CLI - this avoids subtracting the OD of the blank well from the other wells - added weighted AIC and BIC to model attributes - docs improved - removed some tests: tests should check that code works, not that it gives positive results
0.2.2
- warning when number of samples from `sample_params` is lower than requested - added Baranyi-Roberts model with nu=1 and v=r (see Baty & Delignette-Muller, 2004) - reorganized parameter guessing and setting - closes 35 - `v=inf` when there is no lag phase - added arguments to override parameters in competitions - `plot_residuals` to plot the residuals of a model fit - added arguments to `fit_model` and options to the CLI to control minimal values for parameters and to fix parameters to initial guess.
0.2.1
- added guess, param_max, and weights/no-weights as options to `curveball analyse` - closes 76 - fix max param settings in `curveball.models.fit_model`. - hide future warnings in CLI when verbose is off - closes 100 - output RMSD, NRMSD, CV(RMSD) from `curveball analyse` - closes 94