| backStepIter | backwards removes \beta_i in model Y \sim N(X \beta + X... |
| backStepIter2 | backwards removes \beta_i in model Y \sim N(X \beta + X... |
| backward_GeneMixObj | backward selection of find |
| BICmixed.R | computing the BIC for the model in loglikSetup function Not... |
| CholUpdate | Update a Cholesky factor R of Q=R'R to R of Q+XX'= R'R |
| estimateGeneMix | estimate GeneMixObj |
| Figure1 | Figure one in Ghost QTL ... |
| GeneBackward | A more general backward model for geneObject |
| GeneForward | A more general forward model for geneObject |
| getBeta | gets the ML estimate of the covariates given coeffients... |
| getCov | Get the \mu,v covariances (not joint) |
| getCov_old | Get the \mu,v covariances (not joint) |
| getMU | Get the \mu,v estimate (i.e. kriging) |
| getSigmaBeta | Returns the covariance matrix of Beta |
| getSigmaUY | Returns the covariance matrix of t(U) if model is simple... |
| gettavlues | Caculates the t-values for X_i in : Y \sim N(X_i \beta_i + X... |
| gettvaluesCond | Caculates the t-values for X_i in : Y \sim N(X_i \beta_i + X... |
| gettvaluesCond2 | Caculates the t-values for X_i in : Y \sim N(X_i \beta_i + X... |
| hello | Hello, World! |
| iterativeForwardSelectR | Iterative procedure for selecting covariates uder base model:... |
| loglikSetup | setup for computing the loglikelihood for the model Assumes... |
| loglikSimpleR | computing the loglikelihood for the model in loglikSetup... |
| mBIC2_GeneMixObj | mBIC takes a an object and a find list and caculates the mBIC... |
| mixedModel | estimate the gene model and tries to find non-zero coeffients... |
| mixedModelForwardBackward | fitting a mixed model with selection on X usign forward... |
| mixedModelGetBeta | fitting a mixed model with selection on X usign forward... |
| mixedModelOptim | estimate the gene model |
| rcpp_hello | Hello, Rcpp! |
| SetupGeneMix | Base class for gene model Y \sim N(X_k\beta + X \gamma,... |
| simulateDesignMatrix | simulateDesignMatrix |
| simulation_GeneDataSelection | simulation of Xs through selection input |
| simulation_GeneDataSelectionR | simulation of Xs through selection input |
| simulation_mixing | mixing two populations |
| simulation_mixingR | mixing two populations |
| summarizeFind.new | calculate power, FP, FDR, FWER, distance and beta error |
| whiteData | whiting selected vectors |
| WoodburySpecial | WoodburySpecial Computes the inverse of D + UU^T where D is a... |
