# Generated by roxygen2: do not edit by hand

export("%>%")
export("covariates_names<-")
export("factors_names<-")
export("features_metadata<-")
export("features_names<-")
export("groups_names<-")
export("samples_metadata<-")
export("samples_names<-")
export("views_names<-")
export(add_mofa_factors_to_seurat)
export(calculate_contribution_scores)
export(calculate_variance_explained)
export(calculate_variance_explained_per_sample)
export(cluster_samples)
export(compare_elbo)
export(compare_factors)
export(correlate_factors_with_covariates)
export(covariates_names)
export(create_mofa)
export(create_mofa_from_MultiAssayExperiment)
export(create_mofa_from_Seurat)
export(create_mofa_from_SingleCellExperiment)
export(create_mofa_from_df)
export(create_mofa_from_matrix)
export(factors_names)
export(features_metadata)
export(features_names)
export(get_covariates)
export(get_data)
export(get_default_data_options)
export(get_default_mefisto_options)
export(get_default_model_options)
export(get_default_stochastic_options)
export(get_default_training_options)
export(get_dimensions)
export(get_elbo)
export(get_expectations)
export(get_factors)
export(get_group_kernel)
export(get_imputed_data)
export(get_interpolated_factors)
export(get_lengthscales)
export(get_scales)
export(get_variance_explained)
export(get_weights)
export(groups_names)
export(impute)
export(interpolate_factors)
export(load_model)
export(make_example_data)
export(plot_alignment)
export(plot_ascii_data)
export(plot_data_heatmap)
export(plot_data_overview)
export(plot_data_scatter)
export(plot_data_vs_cov)
export(plot_dimred)
export(plot_enrichment)
export(plot_enrichment_detailed)
export(plot_enrichment_heatmap)
export(plot_factor)
export(plot_factor_cor)
export(plot_factors)
export(plot_factors_vs_cov)
export(plot_group_kernel)
export(plot_interpolation_vs_covariate)
export(plot_sharedness)
export(plot_smoothness)
export(plot_top_weights)
export(plot_variance_explained)
export(plot_variance_explained_by_covariates)
export(plot_variance_explained_per_feature)
export(plot_weights)
export(plot_weights_heatmap)
export(plot_weights_scatter)
export(predict)
export(prepare_mofa)
export(run_enrichment)
export(run_mofa)
export(run_tsne)
export(run_umap)
export(samples_metadata)
export(samples_names)
export(select_model)
export(set_covariates)
export(subset_factors)
export(subset_features)
export(subset_groups)
export(subset_samples)
export(subset_views)
export(summarise_factors)
export(views_names)
exportClasses(MOFA)
exportMethods("covariates_names<-")
exportMethods("factors_names<-")
exportMethods("features_metadata<-")
exportMethods("features_names<-")
exportMethods("groups_names<-")
exportMethods("samples_metadata<-")
exportMethods("samples_names<-")
exportMethods("views_names<-")
exportMethods(covariates_names)
exportMethods(factors_names)
exportMethods(features_metadata)
exportMethods(features_names)
exportMethods(groups_names)
exportMethods(samples_metadata)
exportMethods(samples_names)
exportMethods(views_names)
import(basilisk)
import(cowplot)
import(dplyr)
import(ggplot2)
import(grDevices)
import(methods)
import(pheatmap)
import(reshape2)
import(reticulate)
import(tidyr)
importFrom(DelayedArray,DelayedArray)
importFrom(HDF5Array,HDF5ArraySeed)
importFrom(RColorBrewer,brewer.pal)
importFrom(Rtsne,Rtsne)
importFrom(basilisk,BasiliskEnvironment)
importFrom(corrplot,corrplot)
importFrom(cowplot,plot_grid)
importFrom(dplyr,bind_rows)
importFrom(dplyr,desc)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,summarise)
importFrom(dplyr,top_n)
importFrom(forcats,fct_na_value_to_level)
importFrom(ggrepel,geom_text_repel)
importFrom(grDevices,colorRampPalette)
importFrom(magrittr,"%>%")
importFrom(magrittr,set_colnames)
importFrom(pheatmap,pheatmap)
importFrom(reshape2,melt)
importFrom(rhdf5,h5ls)
importFrom(rhdf5,h5read)
importFrom(stats,as.formula)
importFrom(stats,complete.cases)
importFrom(stats,cor)
importFrom(stats,dist)
importFrom(stats,kmeans)
importFrom(stats,median)
importFrom(stats,p.adjust)
importFrom(stats,p.adjust.methods)
importFrom(stats,pnorm)
importFrom(stats,pt)
importFrom(stats,quantile)
importFrom(stats,rbinom)
importFrom(stats,rnorm)
importFrom(stats,rpois)
importFrom(stats,sd)
importFrom(stats,var)
importFrom(stats,wilcox.test)
importFrom(stringi,stri_enc_mark)
importFrom(tidyr,gather)
importFrom(tidyr,spread)
importFrom(utils,as.relistable)
importFrom(utils,head)
importFrom(utils,modifyList)
importFrom(utils,relist)
importFrom(utils,tail)
importFrom(uwot,umap)
