cellGrowth: Fitting cell population growth models

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This package provides functionalities for the fitting of cell population growth models on experimental OD curves.

Author
Julien Gagneur <gagneur@genzentrum.lmu.de>, Andreas Neudecker <a.neudecker@arcor.de>
Date of publication
None
Maintainer
Julien Gagneur <gagneur@genzentrum.lmu.de>
License
Artistic-2.0
Version
1.18.0

View on Bioconductor

Man pages

bandwidthCV
Bandwidth cross-validation
baranyi
Baranyi growth model
fitCellGrowth
Fit growth curves
fitCellGrowths
Fit multiple growth curves
getRowColumn
Convert well ids to row and column
getWellIdsTecan
Get aliases for wells
gompertz
Gompertz growth model
guessCellGrowthParams
Guess growth models parameters
logistic
Logistic growth model
plot.cellGrowthFit
Generic plot function for datatype cellGrowthFit
plotPlate
Plot of a well plate
plot.well
Generic plot function for datatype well
readGenios
Read Tecan Genios data files
readYeastGrower
Read Yeast Grower data files
rosso
Rosso growth model
standardWellId
Make standard names for well ids
wellDataFrame
Create a well data frame

Files in this package

cellGrowth/DESCRIPTION
cellGrowth/NAMESPACE
cellGrowth/R
cellGrowth/R/bandwidthCV.R
cellGrowth/R/baranyi.R
cellGrowth/R/fitCellGrowth.R
cellGrowth/R/fitCellGrowths.R
cellGrowth/R/getRowColumn.R
cellGrowth/R/getWellIdsTecan.R
cellGrowth/R/gompertz.R
cellGrowth/R/guessCellGrowthParams.R
cellGrowth/R/logistic.R
cellGrowth/R/plot.cellGrowthFit.R
cellGrowth/R/plot.well.R
cellGrowth/R/plotPlate.R
cellGrowth/R/readGenios.R
cellGrowth/R/readYeastGrower.R
cellGrowth/R/rosso.R
cellGrowth/R/standardWellId.R
cellGrowth/R/wellDataFrame.R
cellGrowth/TODO.txt
cellGrowth/build
cellGrowth/build/vignette.rds
cellGrowth/inst
cellGrowth/inst/NEWS
cellGrowth/inst/doc
cellGrowth/inst/doc/cellGrowth.R
cellGrowth/inst/doc/cellGrowth.Rnw
cellGrowth/inst/doc/cellGrowth.pdf
cellGrowth/inst/extdata
cellGrowth/inst/extdata/Plate1_YPFruc.txt
cellGrowth/inst/extdata/Plate1_YPMalt.txt
cellGrowth/inst/extdata/Plate2_YPFruc.txt
cellGrowth/inst/extdata/Plate2_YPMalt.txt
cellGrowth/inst/extdata/customDataFormat.txt
cellGrowth/inst/extdata/machineRun.txt
cellGrowth/inst/extdata/plateLayout.txt
cellGrowth/inst/extdata/tecan_genios.txt
cellGrowth/man
cellGrowth/man/bandwidthCV.Rd
cellGrowth/man/baranyi.Rd
cellGrowth/man/fitCellGrowth.Rd
cellGrowth/man/fitCellGrowths.Rd
cellGrowth/man/getRowColumn.Rd
cellGrowth/man/getWellIdsTecan.Rd
cellGrowth/man/gompertz.Rd
cellGrowth/man/guessCellGrowthParams.Rd
cellGrowth/man/logistic.Rd
cellGrowth/man/plot.cellGrowthFit.Rd
cellGrowth/man/plot.well.Rd
cellGrowth/man/plotPlate.Rd
cellGrowth/man/readGenios.Rd
cellGrowth/man/readYeastGrower.Rd
cellGrowth/man/rosso.Rd
cellGrowth/man/standardWellId.Rd
cellGrowth/man/wellDataFrame.Rd
cellGrowth/script
cellGrowth/script/buildman.R
cellGrowth/script/buildman.sh
cellGrowth/vignettes
cellGrowth/vignettes/cellGrowth-platePlotex.pdf
cellGrowth/vignettes/cellGrowth-plotex.pdf
cellGrowth/vignettes/cellGrowth-welldatex.pdf
cellGrowth/vignettes/cellGrowth.Rnw