Unlike scRNA experiments, scATAC uses peak as features instead of genes, which can yield a much bigger dcgMatrix than scRNA. I understand how liger deal with scRNA + scATAC integration (transform peak x cell to gene_activity x cell). And I just wonder how to quick merge (or integrate) two or more scATAC replications as one with liger. Cellranger-atac aggre could be a solution, but this often leads to depth bias even the '--normalize=depth' was used.
Hi,
Unlike scRNA experiments, scATAC uses peak as features instead of genes, which can yield a much bigger dcgMatrix than scRNA. I understand how liger deal with scRNA + scATAC integration (transform peak x cell to gene_activity x cell). And I just wonder how to quick merge (or integrate) two or more scATAC replications as one with liger. Cellranger-atac aggre could be a solution, but this often leads to depth bias even the '--normalize=depth' was used.