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VCCRI / Sierra

Discover differential transcript usage from polyA-captured single cell RNA-seq data
GNU General Public License v3.0
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Clarification on UMI counting #31

Closed cnk113 closed 3 years ago

cnk113 commented 3 years ago

Hello,

I have a custom dataset that has multiple read pairs that share the same UMI, would the counting algorithm take into account those multiple peaks as 1 count for each of those exons/introns?

Best, Chang

rj-patrick commented 3 years ago

Hi @cnk113, Apologies for the very delayed response. For any single peak, a UMI will be counted once. However, in cases where peaks are overlapping, a UMI may contribute to the counts for both peaks.
Cheers, Ralph

cnk113 commented 3 years ago

Ah thanks, that makes sense!