## ----echo=FALSE, results="hide", warning=FALSE, message=FALSE----------------- suppressPackageStartupMessages({ library(scRNAseqApp) }) knitr::opts_chunk$set(warning=FALSE, message=FALSE, fig.width=5, fig.height=3.5) ## ----eval=FALSE--------------------------------------------------------------- # library(BiocManager) # BiocManager::install("scRNAseqApp") ## ----------------------------------------------------------------------------- library(scRNAseqApp) ## ----------------------------------------------------------------------------- publish_folder=tempdir() scInit(app_path=publish_folder) ## ----------------------------------------------------------------------------- scRNAseqApp(app_path = publish_folder) ## ----------------------------------------------------------------------------- library(Seurat) appconf <- createAppConfig( title="pbmc_small_test", destinationFolder = "pbmc_small_test", species = "Homo sapiens", doi="10.1038/nbt.3192", datatype = "scRNAseq") createDataSet( appconf, pbmc_small, datafolder=file.path(publish_folder, "data")) dir(file.path(publish_folder, 'data')) ## ----------------------------------------------------------------------------- sessionInfo()