GrowthUncertainty {biogrowth}  R Documentation 
GrowthUncertainty class
Description
The GrowthUncertainty
class contains the results of a growth prediction
under isothermal conditions considering parameter uncertainty. Its constructor
is predict_growth_uncertainty()
.
It is a subclass of list with the items:
sample: parameter sample used for the calculations.
simulations: growth curves predicted for each parameter.
quantiles: limits of the credible intervals (5%, 10%, 50%, 90%, 95%) for each time point.
model: Model used for the calculations.
mus: Mean parameter values used for the simulations.
sigma: Variancecovariance matrix used for the simulations.
logbase_mu: base of the logarithm for the definition of parameter mu (check the relevant vignette)
logbase_logN: base of the logarithm for the definition of the population size (check the relevant vignette)
Usage
## S3 method for class 'GrowthUncertainty'
print(x, ...)
## S3 method for class 'GrowthUncertainty'
plot(
x,
y = NULL,
...,
line_col = "black",
line_size = 0.5,
line_type = "solid",
ribbon80_fill = "grey",
ribbon90_fill = "grey",
alpha80 = 0.5,
alpha90 = 0.4
)
Arguments
x 
The object of class 
... 
ignored. 
y 
ignored 
line_col 
Aesthetic parameter to change the colour of the line geom in the plot, see: 
line_size 
Aesthetic parameter to change the thickness of the line geom in the plot, see: 
line_type 
Aesthetic parameter to change the type of the line geom in the plot, takes numbers (16) or strings ("solid") see: 
ribbon80_fill 
fill colour for the space between the 10th and 90th quantile, see: 
ribbon90_fill 
fill colour for the space between the 5th and 95th quantile, see: 
alpha80 
transparency of the ribbon aesthetic for the space between the 10th and 90th quantile. Takes a value between 0 (fully transparant) and 1 (fully opaque) 
alpha90 
transparency of the ribbon aesthetic for the space between the 5th and 95th quantile. Takes a value between 0 (fully transparant) and 1 (fully opaque). 
Methods (by generic)

print(GrowthUncertainty)
: print of the model 
plot(GrowthUncertainty)
: Growth prediction (prediction band) considering parameter uncertainty.