#' GeneTonic #' #' `GeneTonic` is a Bioconductor package that provides an interactive Shiny-based #' graphical user interface for... #' #' @author Federico Marini \email{marinif@@uni-mainz.de} #' #' @importFrom AnnotationDbi Definition GOID Ontology Secondary Synonym Term #' @importFrom bs4Dash bs4Card bs4DashBody bs4DashControlbar #' bs4DashFooter bs4DashNavbar bs4DashPage bs4DashSidebar #' bs4InfoBox bs4InfoBoxOutput bs4SidebarMenu #' bs4SidebarMenuItem bs4TabItem bs4TabItems bs4ValueBox #' bs4ValueBoxOutput renderbs4InfoBox renderbs4ValueBox #' bs4TabPanel bs4TabCard #' @importFrom ComplexHeatmap Heatmap HeatmapAnnotation draw #' @importFrom dendextend branches_attr_by_clusters set #' @importFrom DESeq2 vst counts estimateSizeFactors normalizationFactors sizeFactors #' @importFrom dplyr arrange desc group_by mutate pull "%>%" #' @importFrom DT datatable dataTableOutput renderDataTable formatRound #' formatStyle JS #' @importFrom dynamicTreeCut cutreeDynamic #' @importFrom ggforce geom_sina #' @import ggplot2 #' @importFrom ggrepel geom_label_repel geom_text_repel #' @import GO.db #' @importFrom graphics par plot #' @importFrom grDevices colorRampPalette rgb col2rgb #' @importFrom grid gpar #' @importFrom igraph delete.edges E "E<-" graph.data.frame #' permute.vertices V "V<-" #' @importFrom matrixStats rowSds #' @importFrom methods is #' @importFrom plotly ggplotly plotlyOutput renderPlotly plot_ly layout add_trace #' @importFrom RColorBrewer brewer.pal #' @importFrom rintrojs introjs introjsUI #' @importFrom rlang .data #' @importFrom rmarkdown render #' @importFrom S4Vectors mcols #' @importFrom scales alpha muted #' @importFrom stats var dist hclust as.dendrogram as.dist cmdscale median #' order.dendrogram runif #' @rawNamespace import(shiny, except = c(renderDataTable, dataTableOutput)) #' @importFrom shinycssloaders withSpinner #' @importFrom shinyWidgets dropdownButton tooltipOptions #' @import SummarizedExperiment #' @importFrom tidyr separate_rows pivot_longer #' @importFrom tools file_ext file_path_sans_ext #' @importFrom utils read.delim sessionInfo browseURL citation data #' @importFrom visNetwork renderVisNetwork visIgraph visNetworkOutput visOptions #' @importFrom viridis viridis #' #' @name GeneTonic-pkg #' @docType package NULL