cran prep (02d7ef2c) · Commits · github_fork / Presto 20250701

.Rbuildignore

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		@@ -13,6 +13,7 @@ Authors@R: c(
		)
		Description: Scalable implementation of the Wilcoxon rank sum test and auROC statistic. Interfaces to dense and sparse matrices, as well as genomics analysis frameworks Seurat and SingleCellExperiment.
		License: GPL-3
		LazyData: true
		Encoding: UTF-8
		Depends: R (>= 3.4.0), Rcpp, data.table
		LinkingTo: Rcpp, RcppArmadillo
		@@ -22,12 +23,13 @@ Imports:
		methods,
		tidyr,
		reshape2,
		Matrix,
		purrr,
		tibble,
		Matrix (>= 1.5-0),
		rlang,
		stats,
		utils,
		DESeq2
		RoxygenNote: 6.1.1
		utils
		RoxygenNote: 7.2.1
		Suggests:
		knitr,
		rmarkdown,
		@@ -36,6 +38,7 @@ Suggests:
		SingleCellExperiment,
		SummarizedExperiment,
		broom,
		BiocStyle
		BiocStyle,
		DESeq2
		NeedsCompilation: yes
		VignetteBuilder: knitr

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		@@ -17,6 +17,7 @@ export(nnzeroGroups)
		export(pseudobulk_deseq2)
		export(pseudobulk_one_vs_all)
		export(pseudobulk_pairwise)
		export(pseudobulk_within)
		export(rank_matrix)
		export(sumGroups)
		export(summarize_dge_pairs)
		@@ -32,12 +33,19 @@ importFrom(Matrix,Matrix)
		importFrom(Rcpp,evalCpp)
		importFrom(Rcpp,loadModule)
		importFrom(Rcpp,sourceCpp)
		importFrom(data.table,data.table)
		importFrom(dplyr,"%>%")
		importFrom(dplyr,arrange)
		importFrom(dplyr,mutate)
		importFrom(dplyr,select)
		importFrom(methods,as)
		importFrom(methods,is)
		importFrom(purrr,reduce)
		importFrom(rlang,.data)
		importFrom(stats,as.formula)
		importFrom(stats,p.adjust)
		importFrom(stats,pnorm)
		importFrom(stats,wilcox.test)
		importFrom(tibble,rownames_to_column)
		importFrom(utils,head)
		useDynLib(presto)

+14 −2

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		#' matrix of 25 features by 150 observations
		#' Small gene expression matrix
		#'
		#' @format matrix of 25 features by 150 observations
		#'
		"exprs"

		#' vector of group labels in c('A', 'B', 'C')
		#' Group labels for observations in gene expression matrix
		#'
		#' @format a factor with 3 levels
		#'
		"y"

		#' Seurat V3 object with fake data
		#'
		#' @format A Seurat object
		#'
		"object_seurat"

		#' SingleCellExperiment object with fake data
		#'
		#' @format A single cell experiment
		#'
		"object_sce"

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