This repository is a copy of the growthcurver package. The only difference is that this code is tolerant to NAs in the input data. Install it through GitHub:

# install devtools first if you don't already have the package
install.packages("devtools")

# then install growthcurver
devtools::install_github("Russel88/growthcurver")

growthcurver

Growthcurver is an R package that fits growth curve data to a standard form of the logistic equation common in ecology and evolution whose parameters (the growth rate, the initial population size, and the carrying capacity) provide meaningful population-level information with straight-forward biological interpretation.

You can install the latest released version from CRAN from within R with

install.packages("growthcurver")

You can install the latest development version from github with

# install devtools first if you don't already have the package
install.packages("devtools")

# then install growthcurver
devtools::install_github("sprouffske/growthcurver")

Using growthcurver

The easiest way to get started with growthcurver is to work through the examples in the vignette. In the vignette, you can find information on

What your input data should look like
How to use growthcurver to get summary metrics on a single growth curve sample
How to use growthcurver to get summary metrics on an entire plate of growth curves
What those metrics mean and some best practices for quality control

You can find the vignette at bit.ly/1p7w6dJ.

A simple working example

This code loads the growthcurver package and some sample data. Then, it calls SummarizeGrowth to do the analysis.

library(growthcurver)                    # load the package
d <- growthdata                          # load some sample, simulated data
gc_fit <- SummarizeGrowth(d$time, d$A1)  # do the analysis
plot(gc_fit)                             # plot your data and the best fit
gc_fit                                   # view some returned metrics