Description Usage Arguments Value Examples
View source: R/grofit.control.R
The function generates an object of class grofit.control
with the different grofit options and also allows to change these options.
1 2 3 4 5 6 7 8 | grofit.control(neg.nan.act = FALSE, clean.bootstrap = TRUE,
suppress.messages = FALSE, fit.opt = "b",
log.x.gc = FALSE, log.y.gc = FALSE,
interactive = TRUE, nboot.gc = 0,
smooth.gc= NULL, model.type=c("logistic",
"richards","gompertz", "gompertz.exp"),
have.atleast = 6, parameter = 9, smooth.dr = NULL,
log.x.dr = FALSE, log.y.dr = FALSE, nboot.dr = 0)
|
neg.nan.act |
Logical, indicates wether the program should stop when negative growth values or |
clean.bootstrap |
Logical, determines if negative values which occur during bootstrap should be removed ( |
suppress.messages |
Logical, indicates wether |
fit.opt |
Indicates wether the program should perform a model fit ("m"), a spline fit ("s") or both ("b"). Default: "b". |
log.x.gc |
Logical, indicates wether a ln(x+1) should be applied to the time data of the growth curves. Default: |
log.y.gc |
Logical, indicates wether a ln(y+1) should be applied to the growth data of the growth curves. Default: |
interactive |
Logical, controls whether the fit of each growth curve is controlled manually by the user. Default: |
nboot.gc |
Number of bootstrap samples used for the
model free growth curve fitting. Use |
smooth.gc |
Parameter describing the smoothness of the spline fit; usually (not necessary) in (0;1]. Set |
model.type |
Character vector giving the names of the parametric models which should be fitted to the data. Default: |
have.atleast |
Minimum number of different values for the response parameter one shoud have for estimating a dose response curve. Note: All fit procedures require at least six
unique values. Default: |
parameter |
The column of the output table which should be used for creating a dose response curve. See documentation of |
smooth.dr |
Smoothing parameter used in the spline fit by |
log.x.dr |
Logical, indicates wether a ln(x+1) should be applied to the concentration data of the dose response curves. Default: |
log.y.dr |
Logical, indicates wether a ln(y+1) should be applied to the response data of the dose response curves. Default: |
nboot.dr |
Numeric value, defining the number of bootstrap samples for EC50 estimation. Use |
Generates a list containing the entrys described above.
1 2 3 4 | # default option
DefOpt <- grofit.control()
# user defined
MyOpt <- grofit.control(smooth.gc=0.5, model.type=c("gompertz", "logistic"))
|
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