diff --git a/R/scDD-simulate.R b/R/scDD-simulate.R index cdf3b4fee8ce0a1d6b10af3fd46a1506f2557d50..fe70aa680302987ce43503e857d626b72f47a30b 100644 --- a/R/scDD-simulate.R +++ b/R/scDD-simulate.R @@ -28,7 +28,9 @@ #' Code: \url{https://github.com/kdkorthauer/scDD} #' #' @examples +#' \dontrun{ #' sim <- scDDSimulate() +#' } #' @export #' @importFrom scater newSCESet scDDSimulate <- function(params = newSCDDParams(), plots = FALSE, diff --git a/R/splat-simulate.R b/R/splat-simulate.R index 2200a6bb7f53b00d34f95a0bb1a5295118bd6f37..bccfb6ac33ed8d974bdc40318f898b93197c38ec 100644 --- a/R/splat-simulate.R +++ b/R/splat-simulate.R @@ -93,6 +93,7 @@ #' #' @examples #' # Simulation with default parameters +#' \dontrun{ #' sim <- splatSimulate() #' # Simulation with different number of genes #' sim <- splatSimulate(nGenes = 1000) @@ -105,6 +106,7 @@ #' sim <- splatSimulate(method = "groups") #' # Simulate paths #' sim <- splatSimulate(method = "paths") +#' } #' @importFrom Biobase fData pData pData<- assayData #' @importFrom methods validObject #' @importFrom scater newSCESet counts set_exprs<- get_exprs diff --git a/man/scDDSimulate.Rd b/man/scDDSimulate.Rd index d4ed55e013353083df1a8de36c08df5f2db8781e..a5d5db1df0e93a93467ec7c97de3e1fab059ce34 100644 --- a/man/scDDSimulate.Rd +++ b/man/scDDSimulate.Rd @@ -33,8 +33,10 @@ output to an \code{\link[scater]{SCESet}} object. See \code{\link[scDD]{simulateSet}} for more details of how the simulation works. } \examples{ +\dontrun{ sim <- scDDSimulate() } +} \references{ Korthauer KD, Chu L-F, Newton MA, Li Y, Thomson J, Stewart R, et al. scDD: A statistical approach for identifying differential distributions in diff --git a/man/splatSimulate.Rd b/man/splatSimulate.Rd index 8d51ef7f106b6ca18d77581eb2dfc62bf75eaf01..a9b2424933d851b2aef58472614a452b40787193 100644 --- a/man/splatSimulate.Rd +++ b/man/splatSimulate.Rd @@ -109,6 +109,7 @@ order to differentiate them from the values added by Scater which uses } \examples{ # Simulation with default parameters +\dontrun{ sim <- splatSimulate() # Simulation with different number of genes sim <- splatSimulate(nGenes = 1000) @@ -122,6 +123,7 @@ sim <- splatSimulate(method = "groups") # Simulate paths sim <- splatSimulate(method = "paths") } +} \seealso{ \code{\link{splatSimLibSizes}}, \code{\link{splatSimGeneMeans}}, \code{\link{splatSimDE}}, \code{\link{splatSimCellMeans}},