Cellranger sequencing
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15 months ago
crx6xw ▴ 10

Does cellranger scrnaseq normalize counts to transcript length?

normalization scrnaseq cellranger • 494 views
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Entering edit mode
15 months ago
ATpoint 83k

Not that I am aware of. Unlike methods such as salmon it does genome alignment and does not resolve the exact transcript expression composition. Counts are just gene-level counts without modification (other thsn UMI deduplication).

As 10x Chromium is end-tagged anyway I am not convinced length correction would be robust or meaningful here.

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