Hello, everyone. I am learning to use Signac to analyze scATAC-seq data.I went through the workflow of this tutotial(PBMC dataset in 10X Genomics)(https://satijalab.org/signac/articles/pbmc_vignette.html) . For counts variable(peak by cell matrix) created by Signac, I found that there are entries that can larger than 2. But as far as I know, the maximal value of scATAC-seq count data should less than 2? I also attached the code in this thread.
library(Signac) library(Seurat) library(GenomeInfoDb) library(EnsDb.Hsapiens.v75) library(ggplot2) library(patchwork) library(hdf5r) set.seed(1234) counts = Read10X_h5(filename = "atac_v1_pbmc_10k_filtered_peak_bc_matrix.h5") metadata = read.csv( file = "atac_v1_pbmc_10k_singlecell.csv", header = TRUE, row.names = 1 ) head(counts)