comparison between STARsolo and cellranger
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18 months ago

Good morning , I want to ask you if we can say that cellranger and STARsolo generated to same output in my case. Thank you

cellranger count:

Estimated Number of Cells,Mean Reads per Cell,Total Genes Detected,Median UMI Counts per Cell
"8,214","54,413","39,995","10,558"

STARsolo: Mean Reads per Cell,54200 Estimated Number of Cells,8000 Median UMI per Cell,11001 Total Gene Detected,40047

STARsolo cellranger • 1.3k views
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cellranger uses STAR to align the data: https://kb.10xgenomics.com/hc/en-us/articles/115003126432-What-version-of-STAR-is-used-in-Cell-Ranger-

You will want to run STARsolo with parameters recommended by author in this thread: https://github.com/alexdobin/STAR/issues/1381

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