Mercurial > repos > ppericard > viscorvar
view mixomics_blocksplsda_additional_funct.R @ 5:88c1fd2ac110 draft default tip
"planemo upload for repository https://gitlab.com/bilille/galaxy-viscorvar commit 21d09ff286a496ff475f32626d88dd42423ae663"
author | ppericard |
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date | Tue, 07 Sep 2021 10:40:08 +0000 |
parents | c8533e9298e5 |
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#' @title Determination of selected variables for all components #' @description The function unionSelectBlockVariables determines, for each block, the selected block variables #' for all components. #' @param res_block_splsda type : sgccda. This parameter is the output of block.splsda function #' mixOmics. #' @details For each block, the function unionSelectBlockVariables returns 1 if the block variable is selected for #' at least one component. Otherwise, this function returns 0. #' @return type : list of matrix. For each block, if the block variable is selected, the value 1 is associated with #' this block variable. Otherwise the value 0 is associated with this block variable. #' @examples #' data(res_data_integration) #' list_union_selected_block_variables = unionSelectBlockVariables(res_data_integration) #' @export unionSelectBlockVariables <-function(res_block_splsda) { ncomp = res_block_splsda$ncomp[1] names_blocks = names(res_block_splsda$loadings) index_Y = which(names_blocks == "Y") names_blocks = names_blocks[ - index_Y] list_select_block_variables = list() for(i in 1:length(names_blocks)) { mat_loadings_i = res_block_splsda$loadings[[i]] index_i = c() for(j in 1:ncomp) { loadings_i_j = mat_loadings_i[, j] index_i_j = which(loadings_i_j != 0) index_i = c(index_i, index_i_j) } # End for(j 1:ncomp). index_i = unique(index_i) mat_select_block_variables = matrix(0, nrow = dim(mat_loadings_i)[1], ncol = 1) mat_select_block_variables[index_i, 1] = rep(1, length(index_i)) rownames(mat_select_block_variables) = rownames(mat_loadings_i) list_select_block_variables[[i]] = mat_select_block_variables } # End for(i in 1:length(names_blocks)). names(list_select_block_variables) = names_blocks return(list_select_block_variables) }