Cells from each of the 40 sequencing pools (23 from the single-cell multiome assay and 17 from the single-nuclei RNA-seq assay) were demultiplexed back into their samples of origin using the tool Demuxlet76 with default parameters, using the genotype array described above for the reference genotypes of each individual. Between 55% and 75% of cells from each pool were identified as singlets and assigned to a sample. The remaining cells (identified as doublets or ambiguous) were removed from further analysis.
