diff --git a/modules/local/templates/anndatar_convert.R b/modules/local/templates/anndatar_convert.R index 6f78e282..4d710258 100755 --- a/modules/local/templates/anndatar_convert.R +++ b/modules/local/templates/anndatar_convert.R @@ -11,14 +11,14 @@ library(SingleCellExperiment) adata <- read_h5ad("${h5ad}") # convert to Seurat -obj <- adata\$to_Seurat() +obj <- adata\$as_Seurat() # save files dir.create(file.path("$meta.id"), showWarnings = FALSE) saveRDS(obj, file = "${meta.id}_${meta.input_type}_matrix.seurat.rds") # convert to SingleCellExperiment -obj <- adata\$to_SingleCellExperiment() +obj <- adata\$as_SingleCellExperiment() # save files dir.create(file.path("$meta.id"), showWarnings = FALSE)