EstParamCtL: Estimation of chamberlet length parameters CtLFex (Initial...

In weder90/WoLF_R: Working on larger foraminifera - a biometric package

Description

Fitting the chamberlet number vs. chamberlet length series of each chamber of a specimen with a Michaelis Menten function. The function parameters of the Michealis Menten function correspond to the decrease of chamberlet length and the length of the final chamberlet within one chamber. The mean of the decrease of chamberlet length for one specimen is calculated to get CtLD. The length of the final chamberlet vs. chamber series is fitted by a linear function and the function parameters are extracted as the biometric parameters CtLFex and CtLFinc.

Usage

EstParamCtL(startMM1, startMM2, print.mod, path_plot, dev_plot, dev_plot_Ct)

Arguments

startMM1	a vector with lower and upper limit for the starting values for the first Michaelis Menten parameter; default is between 100 and 200
startMM2	a vector with lower and upper limit for the starting values for the second Michaelis Menten parameter; default is between-1 and 1
print.mod	input if the model should be printed; TRUE or FALSE
path_plot	path where graphs should be saved; string
dev_plot	which extension should be used to save graphs of the exponential function; string - if = NULL then graphs are not saved
dev_plot_Ct	which extension should be used to save graphs of the Michaelis Menten function; string - if = NULL then graphs are not saved

Value

the function returns the estimated parameters CtLFex, CtLFinc and CtLD for each specimens as new columns in the summary table

Examples

EstParamCtL(startMM1=c(100,200),startMM2=c(-1,1),print.mod=F,path_plot ="C:/Users/user/Desktop/ggplots",dev_plot ="jpg",dev_plot_Ct = "jpg")
EstParamCtL(startMM1=c(100,200),startMM2=c(-1,1),print.mod=F,path_plot ="C:/Users/user/Desktop/ggplots",dev_plot ="jpg",dev_plot_Ct = "jpg")
EstParamCtL(print.mod=FALSE, path_plot ="C:/Users/user/Desktop/ggplots", dev_plot ="jpg", dev_plot_Ct = "jpg")
EstParamCtL(print.mod=TRUE, path_plot ="C:/Users/user/Desktop/ggplots", dev_plot =NULL, dev_plot_Ct = NULL)

weder90/WoLF_R documentation built on Jan. 21, 2020, 12:18 a.m.