How to divide reads mapping to two different genes using featureCounts
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3 months ago
Apex92 ▴ 60

Hi everyone - I have single-cell RNA sequencing (single-ended) - I used --outFilterMultimapNmax 1 as the alignment option with STAR to report only the unique mapping reads in BAM files. I want to generate read count tables using featureCounts but I want to divide read counts that map to two overlapping features - is it proper to use --fraction , -M and -O options of the featureCounts for this purpose?

Thanks

featureCounts mapping alignment rna-seq • 109 views
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