RNAseq read counts generated by FeatureCounts
Hello I used FeatureCounts to do the read counts for my RNAseq data . Do the read counts FeatureCounts provide an average or absolute total of all the reads of the exons per gene ? Is there any way to get the read count for a specific exon in a gene?
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Adeler001 •
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The read counts are not the average number per exon, they are close to the cumulative total, but not exactly because if a read spans a splice junction it would be counted as a read for two exons, but only contributes one count to the total gene count.
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They are actual read counts. You can remove the
-goption which summarizes counts at gene level to get exon level counts.genomax are the read counts a cumulative total or average of the read counts of the exons per gene
Cross-posted: https://support.bioconductor.org/p/126561/
ok thanks for the answer , I now understand
ok thank you for your replies genomax and kevin