logLike.pars return loglike for give parameters. pi is on normal scale with G groups

1 | ```
logLike.pars(pi,coef,sp.form,sp.data,covar.data)
``` |

` pi` |
vector of pi returned from SpeciesMix |

` coef` |
matrix of coefficents returned from Species Mix |

` sp.form` |
an object of class "formula" (or one that can be coerced to that class):a symbolic description of the model to be fitted |

` sp.data` |
a data frame containing the species information. The frame is arranged so that each row is a site and each column is a species. Species names should be included as column names otherwise numbers from 1:S are assigned. |

` covar.data` |
a data frame containng the covariate data for each site. Names of columns must match that given in |

To Come

` logl` |
loglikelihood |

Piers Dunstan and Scott Foster

1 2 3 4 5 6 7 8 | ```
G <-4
S <- 50
theta <- matrix(c(-9,35,-32,0,0.7,0,-16,23,-8.2,-3,-0.6,0.8),4,3,byrow=TRUE)
dat <- data.frame(y=rep(1,200),x=runif(200,0,2.5),z=rnorm(200,10,2))
dat <- data.frame(dat,x.sq=dat$x^2)
dat1 <- artificial.data(y~1+x+x.sq,dat,theta,S)
fm4 <- SpeciesMix(obs~1+x+x.sq,dat1$pa,dat,G=4,em.prefit=TRUE,em.refit=1,est.var=FALSE)
logLike.pars(fm4$pi,fm4$coef,obs~1+x+x.sq,dat1$pa,dat)
``` |

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