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  • strand-specific Illumina protocol

    Is there any way to tell from the sequence data whether an RNA-Seq Illumina run was done on strand specific data or not?

    Thanks!

  • #2
    I would assume that you could tell by looking at the reads aligning to the genes. If there's a mix of forward and reverse aligning reads, I might assume that the library was not prepped using a strand-specific protocol.

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