growthcurver: Simple Metrics to Summarize Growth Curves

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This is a simple package that fits the logistic equation to microbial growth curve data (e.g., repeated absorbance measurements taken from a plate reader over time). From this fit, a variety of metrics are provided, including the maximum growth rate, the doubling time, the carrying capacity, the area under the logistic curve, and the time to the inflection point.

Author
Kathleen sprouffske [aut, cre]
Date of publication
2016-03-29 11:55:21
Maintainer
Kathleen sprouffske <sprouffske@gmail.com>
License
GPL (>= 2)
Version
0.2.1
URLs

View on CRAN

Man pages

gcfit
Creates an object of class gcfit.
gcvals
Creates an object of type gcvals.
growthdata
Simulated growth curve data
NAtT
Number of Cells at Time t
SummarizeGrowth
Summarize Growth Curves
SummarizeGrowthByPlate
Summarize Growth Curves

Files in this package

growthcurver
growthcurver/inst
growthcurver/inst/doc
growthcurver/inst/doc/Growthcurver-vignette.R
growthcurver/inst/doc/Growthcurver-vignette.html
growthcurver/inst/doc/Growthcurver-vignette.Rmd
growthcurver/tests
growthcurver/tests/testthat.R
growthcurver/tests/testthat
growthcurver/tests/testthat/test_SlopeAtT.R
growthcurver/tests/testthat/test_NAtT.R
growthcurver/tests/testthat/test_SummarizeGrowth.R
growthcurver/tests/testthat/test_AreaUnderCurve.R
growthcurver/tests/testthat/test_FitLogistic.R
growthcurver/tests/testthat/test_TAtInflection.R
growthcurver/tests/testthat/test_DtAtT.R
growthcurver/tests/testthat/test_MaxDt.R
growthcurver/tests/testthat/test_QuantitativeAreaUnderCurve.R
growthcurver/NAMESPACE
growthcurver/data
growthcurver/data/growthdata.rda
growthcurver/R
growthcurver/R/utils.R
growthcurver/R/helpers.R
growthcurver/R/summarize-growth-by-plate.R
growthcurver/R/summarize-growth.R
growthcurver/R/fit-logistic.R
growthcurver/R/zzz.R
growthcurver/vignettes
growthcurver/vignettes/Growthcurver-vignette.Rmd
growthcurver/README.md
growthcurver/MD5
growthcurver/build
growthcurver/build/vignette.rds
growthcurver/DESCRIPTION
growthcurver/man
growthcurver/man/NAtT.Rd
growthcurver/man/gcvals.Rd
growthcurver/man/SummarizeGrowth.Rd
growthcurver/man/SummarizeGrowthByPlate.Rd
growthcurver/man/gcfit.Rd
growthcurver/man/growthdata.Rd