diff --git a/DESCRIPTION b/DESCRIPTION index 0dbf484..dbd7cca 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,12 +1,12 @@ Package: scigenex Type: Package Title: The scigenex package (Single-Cell Informative GENe Explorer) -Version: 1.0.2 +Version: 1.1.2 Date: 2020-07-22 Author: J. Bavais, Aurelie Bergon, Fabrice Lopez, Julien Textoris, Samuel Granjeaud, Lionel Spinelli and Denis Puthier Maintainer: J. Bavais Depends: R (>= 4.0.0), methods, grDevices, stats, utils, dplyr, ggplot2, reshape2, magrittr, testthat, igraph, MCL, iheatmapr -Imports: reshape2, ggplot2, magrittr, dplyr, igraph, MCL, gprofiler2 +Imports: reshape2, ggplot2, magrittr, dplyr, igraph, gprofiler2, plotly Collate: dbfmcl_main.R zzz.R import_package.R Description: The scigenex package (Single-Cell Informative GENe Explorer) proposes a set of functions to extract informative genes from a scRNA-seq experiment, search and store clusters of co-expressed genes. These clusters are annotated and can be mapped onto UMAP or t-SNE diagram to functionally annotate cell populations. biocViews: Clustering, Classification, Transcriptomics, SingleCell, ReportWriting, GeneRegulation diff --git a/NAMESPACE b/NAMESPACE index 2520812..98db126 100644 --- a/NAMESPACE +++ b/NAMESPACE @@ -61,6 +61,7 @@ importFrom(methods,slotNames) importFrom(plotly,layout) importFrom(reshape2,melt) importFrom(stats,as.dist) +importFrom(stats,cor) importFrom(stats,dist) importFrom(stats,hclust) importFrom(stats,heatmap) diff --git a/R/import_package.R b/R/import_package.R index 3c9f3ef..32fff4b 100644 --- a/R/import_package.R +++ b/R/import_package.R @@ -6,7 +6,7 @@ #' #' @importFrom methods new slot slotNames setClass signature setMethod setGeneric #' @importFrom grDevices colorRampPalette -#' @importFrom stats sd dist hclust heatmap median rnorm setNames as.dist hclust +#' @importFrom stats sd dist hclust heatmap median rnorm setNames as.dist hclust cor #' @importFrom utils object.size read.table write.table read.csv #' @importFrom dplyr summarise group_by distinct #' @importFrom ggplot2 ggplot geom_line aes geom_tile geom_vline geom_text