#' valse #' #' Main function #' #' @param X matrix of covariates (of size n*p) #' @param Y matrix of responses (of size n*m) #' @param procedure among 'LassoMLE' or 'LassoRank' #' @param selecMod method to select a model among 'DDSE', 'DJump', 'BIC' or 'AIC' #' @param gamma integer for the power in the penaly, by default = 1 #' @param mini integer, minimum number of iterations in the EM algorithm, by default = 10 #' @param maxi integer, maximum number of iterations in the EM algorithm, by default = 100 #' @param eps real, threshold to say the EM algorithm converges, by default = 1e-4 #' @param kmin integer, minimum number of clusters, by default = 2 #' @param kmax integer, maximum number of clusters, by default = 10 #' @param rang.min integer, minimum rank in the low rank procedure, by default = 1 #' @param rang.max integer, maximum rank in the #' #' @return a list with estimators of parameters #' #' @examples #' #TODO: a few examples #' @export valse = function(X, Y, procedure='LassoMLE', selecMod='DDSE', gamma=1, mini=10, maxi=50, eps=1e-4, kmin=2, kmax=2, rang.min=1, rang.max=10, ncores_outer=1, ncores_inner=3, verbose=FALSE) { p = dim(X)[2] m = dim(Y)[2] n = dim(X)[1] if (verbose) print("main loop: over all k and all lambda") if (ncores_outer > 1) { cl = parallel::makeCluster(ncores_outer) parallel::clusterExport( cl=cl, envir=environment(), varlist=c("X","Y","procedure", "selecMod","gamma","mini","maxi","eps","kmin","kmax","rang.min","rang.max", "ncores_outer","ncores_inner","verbose","p","m","k","tableauRecap") ) } # Compute models with k components computeModels <- function(k) { if (ncores_outer > 1) require("valse") #nodes start with an empty environment if (verbose) print(paste("Parameters initialization for k =",k)) #smallEM initializes parameters by k-means and regression model in each component, #doing this 20 times, and keeping the values maximizing the likelihood after 10 #iterations of the EM algorithm. P = initSmallEM(k, X, Y) grid_lambda <- computeGridLambda(P$phiInit, P$rhoInit, P$piInit, P$gamInit, X, Y, gamma, mini, maxi, eps) # TODO: 100 = magic number if (length(grid_lambda)>100) grid_lambda = grid_lambda[seq(1, length(grid_lambda), length.out = 100)] if (verbose) print("Compute relevant parameters") #select variables according to each regularization parameter #from the grid: S$selected corresponding to selected variables S = selectVariables(P$phiInit, P$rhoInit, P$piInit, P$gamInit, mini, maxi, gamma, grid_lambda, X, Y, 1e-8, eps, ncores_inner) #TODO: 1e-8 as arg?! eps? if (procedure == 'LassoMLE') { if (verbose) print('run the procedure Lasso-MLE') #compute parameter estimations, with the Maximum Likelihood #Estimator, restricted on selected variables. models <- constructionModelesLassoMLE(phiInit, rhoInit, piInit, gamInit, mini, maxi, gamma, X, Y, thresh, eps, S$selected, ncores_inner, verbose) } else { if (verbose) print('run the procedure Lasso-Rank') #compute parameter estimations, with the Low Rank #Estimator, restricted on selected variables. models <- constructionModelesLassoRank(S$Pi, S$Rho, mini, maxi, X, Y, eps, A1, rank.min, rank.max, ncores_inner, verbose) } models } # List (index k) of lists (index lambda) of models models_list <- if (ncores_k > 1) parLapply(cl, kmin:kmax, computeModels) else lapply(kmin:kmax, computeModels) if (ncores_k > 1) parallel::stopCluster(cl) if (! requireNamespace("capushe", quietly=TRUE)) { warning("'capushe' not available: returning all models") return (models_list) } # Get summary "tableauRecap" from models ; TODO: jusqu'à ligne 114 à mon avis là c'est faux :/ tableauRecap = t( sapply( models_list, function(models) { llh = do.call(rbind, lapply(models, function(model) model$llh) LLH = llh[-1,1] D = llh[-1,2] c(LLH, D, rep(k, length(model)), 1:length(model)) ) } ) ) if (verbose) print('Model selection') tableauRecap = tableauRecap[rowSums(tableauRecap[, 2:4])!=0,] tableauRecap = tableauRecap[!is.infinite(tableauRecap[,1]),] data = cbind(1:dim(tableauRecap)[1], tableauRecap[,2], tableauRecap[,2], tableauRecap[,1]) modSel = capushe::capushe(data, n) indModSel <- if (selecMod == 'DDSE') as.numeric(modSel@DDSE@model) else if (selecMod == 'Djump') as.numeric(modSel@Djump@model) else if (selecMod == 'BIC') modSel@BIC_capushe$model else if (selecMod == 'AIC') modSel@AIC_capushe$model model[[tableauRecap[indModSel,3]]][[tableauRecap[indModSel,4]]] }