Fig. 3: The impact of deduplication in different ways on quantification.
From: ATAC-seq with unique molecular identifiers improves quantification and footprinting
All analyses were performed using UMI-ATAC-seq data from rice sample C019. a–c Scatter plots contrasting quantification results of no deduplication (ND), coordinate-based deduplication (CD), and UMI-based deduplication (UD) datasets. Each point is the number of Tn5 insertions in a 250 bp bin (log base 2). d Box plot illustrating the distribution of the presumed PCR duplication rates in regions with different chromatin accessibility. We divided the top 4.4% (Tn5 insertions > 100) of the most accessible 250 bp bins into deciles for analysis. The dashed lines represent the averages of the corresponding presumed PCR duplication rates.
