fido (version 1.1.2)

fido_transforms: Transform Fit fido Parameters to other representations

Description

These are a collection of convenience functions for transforming fido fit objects to a number of different representations including ILR bases, CLR coordinates, ALR coordinates, and proportions.

Usage

to_proportions(m)
to_alr(m, d)
to_ilr(m, V = NULL)
to_clr(m)
# S3 method for pibblefit
to_proportions(m)
# S3 method for orthusfit
to_proportions(m)
# S3 method for pibblefit
to_alr(m, d)
# S3 method for orthusfit
to_alr(m, d)
# S3 method for pibblefit
to_ilr(m, V = NULL)
# S3 method for orthusfit
to_ilr(m, V = NULL)
# S3 method for pibblefit
to_clr(m)
# S3 method for orthusfit
to_clr(m)

Value

object

Arguments

m

object of class pibblefit or orthusfit (e.g., output of pibble or orthus)

d

(integer) multinomial category to take as new alr reference

V

(matrix) contrast matrix for ILR basis to transform into to (defaults to create_default_ilr_base(D))

Details

For orthus, transforms only appleid to log-ratio parameters

Note: that there is a degeneracy of representations for a covariance matrix represented in terms of proportions. As such the function to_proportions does not attempt to transform parameters Sigma or prior Xi and instead just removes them from the pibblefit object returned.