STAR --quantMode GeneCounts vs featureCounts
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9.0 years ago
emblake ▴ 90

Has anyone compared output from STAR --quantMode GeneCounts and featureCounts? Are there any major differences in reporting? I have read that STAR's GeneCounts behaves like HTSeq run with default parameters. Does anyone have a preference for one tool vs the other? If so, why?

rna-seq • 6.5k views
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9.0 years ago

Read the featureCounts paper. They have compared with other quantification tools.
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