binegbin | R Documentation |
Functions for the bivariate negative binomial distribution, as generated via trivariate reduction: density, random-number generation, and moments of the log-transformed distribution.
dbinegbin(y, nu, p, log=FALSE, add.carefully=FALSE) binegbin.logMV(nu,p,const.add=1,tol=1e-14,add.carefully=FALSE) rbinegbin(n, nu, p)
y |
Numeric vector or two-column matrix of bivariate data. If matrix, each row corresponds to an observation. |
nu |
Numeric vector or three-column matrix of non-negative values for index parameters nu0, nu, and nu2, in that order. If matrix, is read by row. |
p |
Numeric vector or three-column matrix of values for Bernoulli parameters p0, p1, and p2, in that order. If matrix, is read by row. Values must be on the interval (0,1]. |
log |
Logical; should the natural log of the probability be returned? Defaults to |
add.carefully |
Logical. If |
const.add |
Numeric vector of positive constants to add to the non-negative integers before taking their natural logarithm. Defaults to 1, for the typical log(y+1) transformation. |
tol |
Numeric; must be positive. When |
n |
Integer; number of observations to be randomly generated. |
This bivariate negative binomial distribution is constructed from three independent latent variables, in the same manner as the bivariate Lagrangian Poisson distribution.
Function dbinegbin()
is the bivariate negative binomial density (PMF). Function rbinegbin()
generates random draws from the bivariate negative binomial distribution, via calls to rnbinom()
. Function binegbin.logMV()
numerically computes the means, variances, and covariance of a bivariate LGP distribution, after it has been log transformed following addition of a positive constant.
Vectors of numeric arguments other than tol
are cycled, whereas only the first element of logical and integer arguments is used.
dbinegbin()
returns a numeric vector of probabilities. rbinegbin()
returns a matrix of random draws, which is of type 'numeric' (rather than 'integer', even though the negative binomial only has support on the non-negative integers). binegbin.logMV()
returns a numeric matrix with the following five named columns:
EY1
: Post-tranformation expectation of Y1.
EY2
: Post-tranformation expectation of Y2.
VY1
: Post-tranformation variance of Y1.
VY2
: Post-tranformation variance of Y2.
COV
: Post-tranformation covariance of Y1 and Y2.
Robert M. Kirkpatrick rkirkpatrick2@vcu.edu
dbiLGP
, dnbinom()
, rnbinom()
## The following two lines do the same thing: dbinegbin(y=1,nu=1,p=0.9) dbinegbin(y=c(1,1),nu=c(1,1,1),p=c(0.9,0.9,0.9)) dbinegbin(y=c(1,1,2,2,3,5),nu=c(1,1,1,2,2,2),p=0.9) ## Due to argument cycling, the above line is doing the following three steps: dbinegbin(y=c(1,1),nu=c(1,1,1),p=c(0.9,0.9,0.9)) dbinegbin(y=c(2,2),nu=c(2,2,2),p=c(0.9,0.9,0.9)) dbinegbin(y=c(3,5),nu=c(1,1,1),p=c(0.9,0.9,0.9)) ## Inputs to dbinegbin() can be matrices, too: dbinegbin(y=matrix(c(1,1,2,2,3,5),ncol=2,byrow=TRUE), nu=matrix(c(1,1,1,2,2,2,1,1,1),ncol=3,byrow=TRUE), p=0.9) ## nu0 = 0 implies independence: a <- dbinegbin(y=c(1,3),nu=c(0,1,2),p=c(0.1,0.5,0.9)) b <- dnegbin(x=1,nu=1,p=0.5) * dnegbin(x=3,nu=2,p=0.9) a-b #<--near zero. ( y <- rbinegbin(10,nu=c(1.1,0.87,5.5),p=c(0.87,0.89,0.90)) ) dbinegbin(y=y,nu=c(1.1,0.87,5.5),p=c(0.87,0.89,0.90)) ( mv <- negbinMVP(nu=c(1.1,0.87,5.5),p=c(0.87,0.89,0.90)) ) mv[1,2] #<--Covariance of this distribution mv[1,2]+mv[2,2] #<--Marginal variance of Y1 mv[1,2]+mv[3,2] #<--Marginal variance of Y2 mv[1,2]/(sqrt(mv[1,2]+mv[2,2])*sqrt(mv[1,2]+mv[3,2])) #<--Correlation logmv <- binegbin.logMV(nu=c(1.1,0.87,5.5),p=c(0.87,0.89,0.90)) ## Log transformation nearly cuts the correlation in half: logmv[1,5]/sqrt(logmv[1,3]*logmv[1,4])
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