A collection of methods to determine growth rates from experimental data, in particular from batch experiments and plate reader trials.

Author | Thomas Petzoldt |

Date of publication | 2016-03-14 07:54:21 |

Maintainer | Thomas Petzoldt <thomas.petzoldt@tu-dresden.de> |

License | GPL (>= 2) |

Version | 0.6.5 |

https://github.com/tpetzoldt/growthrates |

**all_easylinear:** Easy Growth Rates Fit to data Frame

**all_growthmodels:** Fit Nonlinear Growth Models to Data Frame

**all_splines:** Fit Exponential Growth Model with Smoothing Spline

**bactgrowth:** Plate Reader Data of Bacterial Growth

**cost:** Cost Function for Nonlinear Fits

**extract:** Extract or Replace Parts of a 'multiple_fits' Object

**fit_easylinear:** Fit Exponential Growth Model with a Heuristic Linear Method

**fit_growthmodel:** Fit Nonlinear Parametric Growth Model

**fit_spline:** Fit Exponential Growth Model with Smoothing Spline

**function_growthmodel-class:** Union Class of Growth Model or Function

**generics:** Additional Generic Functions

**grow_baranyi:** The Baranyi and Roberts Growth Model

**grow_exponential:** Exponential Growth Model

**grow_genlogistic:** Generalized Logistic Growth Model

**grow_gompertz:** Growth Model According to Gompertz

**grow_huang:** Growth Model According to Huang

**grow_logistic:** Logistic Growth Model

**grow_richards:** Growth Model According to Richards

**growthmodel-class:** Class of Growth Model Functions

**growthmodel-constructor:** Create a User-defined Parametric Growth Model

**growthrates-classes:** S4 Classes of Package 'growthrates'

**growthrates-package:** Estimate Growth Rates from Experimental Data

**grow_twostep:** Twostep Growth Model

**lm_window:** Fit Exponential Growth Model with a Heuristic Linear Method

**methods:** Accessor Methods of Package 'growthrates'.

**multisplit:** Split Data Frame into Multiple Groups

**names:** Get Names Attributes of Growth Models

**parse_formula:** Simple Formula Interface

**parse_formula_nonlin:** Simple Formula Interface for Grouped Nonlinear Functions

**plot:** Plot Model Fits

growthrates

growthrates/inst

growthrates/inst/doc

growthrates/inst/doc/examples

growthrates/inst/doc/examples/example_growthmodel.R

growthrates/inst/doc/examples/import_grofit_data.R

growthrates/inst/doc/examples/benchmark_compiled_ode.R

growthrates/inst/doc/examples/example_huang_p_as_df.R

growthrates/inst/doc/examples/example_huang.R

growthrates/inst/doc/examples/example_user_defined_growthmodel.R

growthrates/inst/doc/examples/example_user_defined_ode_compiled.R

growthrates/inst/doc/examples/example_easylinear.R

growthrates/inst/doc/examples/example_spline.R

growthrates/inst/doc/examples/startvalue_heuristics.R

growthrates/inst/doc/examples/example_masking.R

growthrates/inst/doc/examples/example_baranyi.R

growthrates/inst/doc/examples/example_user_defined_ode_model.R

growthrates/inst/doc/Introduction.Rmd

growthrates/inst/doc/Introduction.R

growthrates/inst/doc/Introduction.pdf

growthrates/inst/doc/User_models.pdf

growthrates/inst/doc/User_models.R

growthrates/inst/doc/User_models.Rmd

growthrates/src

growthrates/src/twostep.c

growthrates/src/genlogistic.c

growthrates/NAMESPACE

growthrates/demo

growthrates/demo/growthrates.R

growthrates/demo/00Index

growthrates/data

growthrates/data/bactgrowth.txt.gz

growthrates/R

growthrates/R/grow_twostep.R
growthrates/R/parse_formula.R
growthrates/R/aac_classes.R
growthrates/R/multisplit.R
growthrates/R/fit_growthmodel.R
growthrates/R/cost.R
growthrates/R/all_growthmodels.R
growthrates/R/plot.R
growthrates/R/fit_spline.R
growthrates/R/all_splines.R
growthrates/R/growthrates-package.R
growthrates/R/utilities.R
growthrates/R/grow_logistic.R
growthrates/R/methods.R
growthrates/R/grow_gompertz.R
growthrates/R/aab_growthmodel-constructor.R
growthrates/R/grow_exponential.R
growthrates/R/fit_easylinear.R
growthrates/R/grow_genlogistic.R
growthrates/R/grow_huang.R
growthrates/R/extract.R
growthrates/R/names.R
growthrates/R/grow_baranyi.R
growthrates/R/parse_formula_nonlin.R
growthrates/R/all_easylinear.R
growthrates/R/grow_richards.R
growthrates/R/aad_set_generics.R
growthrates/R/aaa_growthmodel-class.R
growthrates/R/bactgrowth.R
growthrates/R/lm_window.R
growthrates/vignettes

growthrates/vignettes/Introduction.Rmd

growthrates/vignettes/growthrates.bib

growthrates/vignettes/User_models.Rmd

growthrates/MD5

growthrates/build

growthrates/build/vignette.rds

growthrates/DESCRIPTION

growthrates/man

growthrates/man/fit_easylinear.Rd
growthrates/man/all_easylinear.Rd
growthrates/man/grow_genlogistic.Rd
growthrates/man/names.Rd
growthrates/man/growthmodel-class.Rd
growthrates/man/cost.Rd
growthrates/man/parse_formula.Rd
growthrates/man/parse_formula_nonlin.Rd
growthrates/man/all_splines.Rd
growthrates/man/lm_window.Rd
growthrates/man/all_growthmodels.Rd
growthrates/man/fit_growthmodel.Rd
growthrates/man/grow_twostep.Rd
growthrates/man/growthrates-package.Rd
growthrates/man/generics.Rd
growthrates/man/function_growthmodel-class.Rd
growthrates/man/fit_spline.Rd
growthrates/man/growthmodel-constructor.Rd
growthrates/man/growthrates-classes.Rd
growthrates/man/grow_logistic.Rd
growthrates/man/grow_baranyi.Rd
growthrates/man/grow_richards.Rd
growthrates/man/grow_exponential.Rd
growthrates/man/multisplit.Rd
growthrates/man/methods.Rd
growthrates/man/bactgrowth.Rd
growthrates/man/grow_gompertz.Rd
growthrates/man/grow_huang.Rd
growthrates/man/plot.Rd
growthrates/man/extract.Rd
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