SEACells: Inference of transcriptional and epigenomic cellular states from single-cell genomics data

Processed data for the manuscript "" available on bioRxiv at ""

Data is available for the following samples

CD34+ Multiome data : 2 replicates 

T-cell depleted bone marrow Multiome data: 2 replicates 

The following counts and fragments files are available for each replicate 

_filtered_feature_bc_matrix.h5: Feature counts from CellRanger ARC

_atac_fragments.tsv.gz: ATAC fragments file from Cellranger ARC

_atac_fragments.tsv.gz.tbi: Index files for ATAC fragments file from Cellranger ARC

The following scanpy anndata objects are also available

cd34_multiome_rna.h5ad: Anndata object with normalized data, cell type annotations and clusters for the RNA modality of CD34+ hematopoietic stem and progenitor cells 

cd34_multiome_atac.h5ad: Anndata object with peak counts, cell type annotations and clusters for the ATAC modality of of CD34+ hematopoietic stem and progenitor cells.

cd34_multiome_rna.h5ad: Anndata object with normalized data, cell type annotations and clusters for the RNA modality of T-cell depleted bone marrow dataset.

bm_multiome_atac.h5ad: Anndata object with peak counts, cell type annotations and clusters for the ATAC modality of T-cell depleted bone marrow dataset.