print.indelmiss: Print summary information from fit

In indelmiss: Insertion Deletion Analysis While Accounting for Possible Missing Data

Print summary information from fit

Description

Summary command for use on an object of class "indelmiss". Depending on the model, the rates (mu: deletion; nu: insertion), missing data proportion (p), and prior probability of gene family absence at the root are printed. If branch groupings (or clades) were specified, then the rates (and corresponding standard errors) are displayed in a matrix with the columns representing the different branch groupings (ordered by the subsets of x$bg where x is an object of class "indelmiss"). The rows represent the gene deletion and insertion rate, respectively.

Usage

## S3 method for class 'indelmiss'
print(x, ...)

Arguments

x	An object of class "indelmiss".
...	Ignore this.

Value

Output summary information from the fit.

Author(s)

Utkarsh J. Dang and G. Brian Golding

[e-mail]

See Also

See also indelrates and plot.indelmiss.

Examples

indel <- indelrates(datasource = "simulation", seed = 1, taxa = 5,
             mu = 1, nu = 3, phyl = 5000,  pmiss = c(0.2, 0.5), toi = c(1, 3), 
             zerocorrection = TRUE, 
             modelnames = c("M1", "M2", "M3", "M4"),
             optmethod = "nlminb")
print(indel)

indelmiss documentation built on Sept. 15, 2023, 5:16 p.m.