Sigmas-class {destiny} | R Documentation |
Holds the information about how the sigma
parameter for a DiffusionMap was obtained,
and in this way provides a plotting function for the find_sigmas heuristic.
You should not need to create a Sigmas object yourself. Provide sigma
to DiffusionMap instead or use find_sigmas.
Sigmas(...) ## S4 method for signature 'Sigmas' optimal_sigma(object) ## S4 method for signature 'Sigmas' print(x) ## S4 method for signature 'Sigmas' show(object)
object, x |
Sigmas object |
... |
See “Slots” below |
A Sigmas object is either created by find_sigmas or by specifying the sigma
parameter to DiffusionMap.
In the second case, if the sigma
parameter is just a number,
the resulting Sigmas
object has all slots except of optimal_sigma
set to NULL
.
Sigmas
creates an object of the same class
optimal_sigma
retrieves the numeric value of the optimal sigma or local sigmas
log_sigmas
Vector of length m containing the \log_{10} of the σs
dim_norms
Vector of length m-1 containing the average dimensionality \langle p \rangle for the respective kernel widths
optimal_sigma
Multiple local sigmas or the mean of the two global σs around the highest \langle p \rangle (c(optimal_idx, optimal_idx+1L)
)
optimal_idx
The index of the highest \langle p \rangle.
avrd_norms
Vector of length m containing the average dimensionality for the corresponding sigma.
find_sigmas
, the function to determine a locally optimal sigma and returning this class
data(guo) sigs <- find_sigmas(guo, verbose = FALSE) optimal_sigma(sigs) print(sigs)