10x GenomicsのNormalization

10x GenomicsのNormalization

• mapped (default): For each library type, subsample reads from higher-depth GEM wells until they all have, on average, an equal number of reads per cell that are confidently mapped to the transcriptome (Gene Expression) or assigned to known features (Feature Barcode Technology). If Targeted Gene Expression libraries are included, then normalization is performed on the basis of average reads per cell mapped confidently to the targeted transcriptome. The subsampling rates for Targeted Gene Expression libraries are all multiplied by 2 (provided all samples can achieve that depth). This is consistent with sequencing depth recommendations and is also done to avoid removing large fractions of reads from targeted libraries whenever they are combined with whole transcriptome libraries.