params_process for a BMparams_BM creates a coherent object params_process from user
provided values of the parameters. Non specified parameters are set to
default values.
params_BM(
p = 1,
variance = diag(1, p, p),
random = FALSE,
value.root = rep(0, p),
exp.root = rep(0, p),
var.root = diag(1, p, p),
edges = NULL,
values = matrix(0, p, length(edges)),
relativeTimes = NULL,
nbr_of_shifts = length(edges),
phylo = NULL,
sBM_variance = FALSE,
trait_names = NULL,
...
)an object of class params_process.
the dimension (number of traits) of the parameters. Default to 1.
the variance (rate matrix) of the BM. Default to
diag(1, p, p).
whether the root of the BM is random (TRUE) or fixed (FALSE). Default to FALSE.
if random=FALSE, the root value. Default to 0.
if random=TRUE, the root expectation. Default to 0.
if random=TRUE, the root variance. Default to
diag(1, p, p).
a vector of edges where the shifts occur. Default to NULL (no shift).
a matrix of shift values, with p lines and as many columns as
the number of shifts. Each column is the p values for one shift. Default to
matrix(0, p, length(edges)).
(unused) the relative position of the shift on the branch, between 0 (beginning of the branch) and 1 (end of the branch). Default to 0.
the number of shifts to use (randomly drawn). Use only
if edges is not specified. In that case, a phylogenetic tree must be
provided (to allow a random sampling of its edges).
a phylogenetic tree of class phylo. Needed only if
the shifts edges are not specified, or if sBM_variance=TRUE. Default to NULL.
If sBM_variance=TRUE, it must have a specified value for the root branch
length (slot root.edge).
if the root is random, does it depend on the length of the root edge ? (For equivalent purposes with a rescaled OU). Default to FALSE. If TRUE, a phylogenetic tree with root edge length must be provided.
vector of trait names values. Must be of length p.
unused.
params_process, params_OU