scMerge [18], and ZINB-WaVE [6]. We employ ten datasets with different characteristics in order to test these methods under five different scenarios. These scenarios are as follows: batches with identical cell types but different sequencing technologies, batches containing non-identical cell types,...
Single-cell transcriptomics is a versatile tool for exploring heterogeneous cell populations, but as with all genomics experiments, batch effects can hamper data integration and interpretation. The success of batch-effect correction is often evaluated by