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Weird promoter ratio versus log10(UMI) curve
This is what my promoter ratio versus log10(UMI) curve looks like:
What's wrong with this? And how should I select the quality barcodes based on this graph? I tried to set low quality criteria, but result in zero cell barcodes after filtering.
Thank you.
For custom references or references missing the promoter.bed file, the count of promoter_region_fragments is 0. I use TSS_fragments to filter cell barcodes instead.
My promoter ratio plots were exactly the same as yours 🌚, although my reference genome version is hg38, of which the bed file should not be missing, this is weird. I instead use the peak ratio combined with logUMI as QC metrics.