# Generated by roxygen2: do not edit by hand

S3method(boot_ci,cor_phylo)
S3method(fitted,communityPGLMM)
S3method(fixef,communityPGLMM)
S3method(plot,communityPGLMM)
S3method(print,binaryPGLMM)
S3method(print,communityPGLMM)
S3method(print,cor_phylo)
S3method(print,cp_refits)
S3method(ranef,communityPGLMM)
S3method(residuals,communityPGLMM)
S3method(summary,communityPGLMM)
export("%nin%")
export(align_comm_V)
export(binaryPGLMM)
export(boot_ci)
export(communityPGLMM)
export(communityPGLMM.matrix.structure)
export(communityPGLMM.plot.re)
export(communityPGLMM.predicted.values)
export(communityPGLMM.profile.LRT)
export(communityPGLMM.show.re)
export(cor_phylo)
export(fixef)
export(get_design_matrix)
export(match_comm_tree)
export(pcd)
export(pcd_pred)
export(pglmm)
export(pglmm.matrix.structure)
export(pglmm.plot.ranef)
export(pglmm.plot.re)
export(pglmm.predicted.values)
export(pglmm.profile.LRT)
export(prep_dat_pglmm)
export(psc)
export(psd)
export(pse)
export(psr)
export(psv)
export(psv.spp)
export(ranef)
export(refit_boots)
export(rm_site_noobs)
export(rm_sp_noobs)
export(vcv2)
importClassesFrom(Matrix,RsparseMatrix)
importClassesFrom(Matrix,dgTMatrix)
importClassesFrom(Matrix,dsCMatrix)
importFrom(Rcpp,sourceCpp)
importFrom(ape,compute.brlen)
importFrom(ape,drop.tip)
importFrom(ape,is.rooted)
importFrom(ape,read.tree)
importFrom(ape,vcv)
importFrom(ape,vcv.phylo)
importFrom(ape,write.tree)
importFrom(graphics,image)
importFrom(graphics,par)
importFrom(lme4,fixef)
importFrom(lme4,ranef)
importFrom(methods,as)
importFrom(methods,hasArg)
importFrom(methods,is)
importFrom(methods,show)
importFrom(stats,as.dendrogram)
importFrom(stats,as.dist)
importFrom(stats,as.formula)
importFrom(stats,binomial)
importFrom(stats,dist)
importFrom(stats,family)
importFrom(stats,fitted)
importFrom(stats,formula)
importFrom(stats,glm)
importFrom(stats,lm)
importFrom(stats,make.link)
importFrom(stats,model.frame)
importFrom(stats,model.matrix)
importFrom(stats,model.response)
importFrom(stats,na.omit)
importFrom(stats,optim)
importFrom(stats,pchisq)
importFrom(stats,pnorm)
importFrom(stats,poisson)
importFrom(stats,printCoefmat)
importFrom(stats,quantile)
importFrom(stats,reorder)
importFrom(stats,reshape)
importFrom(stats,residuals)
importFrom(stats,rnorm)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(stats,update)
importFrom(stats,var)
importMethodsFrom(Matrix,"%*%")
importMethodsFrom(Matrix,crossprod)
importMethodsFrom(Matrix,determinant)
importMethodsFrom(Matrix,diag)
importMethodsFrom(Matrix,image)
importMethodsFrom(Matrix,solve)
importMethodsFrom(Matrix,t)
importMethodsFrom(Matrix,tcrossprod)
useDynLib(phyr, .registration = TRUE)
