From d65a7f97304b28f8c7c408f8b6d5c6ba162e78b6 Mon Sep 17 00:00:00 2001 From: r-trimbour Date: Tue, 9 Apr 2024 17:42:54 +0200 Subject: [PATCH] update vignette to use Initiate_Hummus_Object --- R/hummus_objet.R | 2 +- vignettes/add_networks.Rmd | 2 +- vignettes/chen_vignette.Rmd | 2 +- 3 files changed, 3 insertions(+), 3 deletions(-) diff --git a/R/hummus_objet.R b/R/hummus_objet.R index a187d55..3b35fc0 100644 --- a/R/hummus_objet.R +++ b/R/hummus_objet.R @@ -183,7 +183,7 @@ Hummus_Object <- setClass( #' @examples seurat_object <- Seurat::CreateSeuratObject(counts = matrix(rnorm(1000), nrow = 100, ncol = 10)) #' hummus <- InitiateHummus_Object(seurat_object) #' hummus -Initiate_Hummus_Object<- function( +Initiate_Hummus_Object <- function( seurat_assays, active.assay = NULL, multilayer = NULL, diff --git a/vignettes/add_networks.Rmd b/vignettes/add_networks.Rmd index 27196ec..7402e75 100644 --- a/vignettes/add_networks.Rmd +++ b/vignettes/add_networks.Rmd @@ -40,7 +40,7 @@ Additionally, it contains a motifs_db object, providing tf motifs informations, # Load the Chen dataset, which is a Seurat object containing scRNA-seq and scATAC-seq data data("chen_dataset_subset") chen_dataset_subset -hummus <- Initiate_HuMMuS_Object(chen_dataset_subset) +hummus <- Initiate_Hummus_Object(chen_dataset_subset) # wrapper of Signac::GetGRangesFromEnsDb, adapting output to UCSC format diff --git a/vignettes/chen_vignette.Rmd b/vignettes/chen_vignette.Rmd index c396133..1feedfc 100644 --- a/vignettes/chen_vignette.Rmd +++ b/vignettes/chen_vignette.Rmd @@ -73,7 +73,7 @@ data("chen_dataset_subset") chen_dataset_subset # Create an hummus object from seurat object -hummus <- Initiate_HuMMuS_Object(chen_dataset_subset) +hummus <- Initiate_Hummus_Object(chen_dataset_subset) ``` ### 1.2. Add genome and motif annotations to hummus object