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Strandedness of coverage #19

@mincej

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@mincej

I was unable to determine how strandedness information is used in megadepth - like featureCounts -s 1/2 parameter - to resolve overlapping gene ambiguity when mapping with a stranded RNA-seq protocol when --coverage is being used. Does megadepth use strandedness information, or is this all treated as unstranded? If the latter, how should we resolve stranded data for overlapping genes?

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