comparison between STARsolo and cellranger
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
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dalibenam64 •
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cellrangerusesSTARto 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
STARsolowith parameters recommended by author in this thread: https://github.com/alexdobin/STAR/issues/1381