Description Usage Arguments Value
View source: R/mixture_gibbs_functions.R
This function samples the cluster assignment for each location (z)
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | ## S3 method for class 'z'
update(
dat,
nl,
n.minus.y,
phi,
theta,
ngroup,
nloc,
nspp,
z,
a.prior,
b.prior,
constant
)
|
dat |
this matrix has L rows (locations) and S columns (species) and contains the presence-absence data (i.e., number of times a given species was observed at a given location) |
nl |
this vector has L elements (locations) and contains the number of observation opportunities at each location |
n.minus.y |
matrix with L rows (e.g., locations) and S columns (e.g., species), calculated as matrix(nl,L,S)-dat |
phi |
K x S matrix with the probability of observing each species in each group |
theta |
vector of length K with the probability of each location group |
ngroup |
maximum number of location groups (K) |
nloc |
number of locations (L) |
nspp |
number of species (S) |
z |
vector of size L containing the current cluster assignment for each location |
a.prior |
'a' parameter for prior beta distribution |
b.prior |
'b' parameter for prior beta distribution |
constant |
constant term used to calculate probability for a new group |
this function returns a vector of size L with the cluster assignment of each location
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