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  • strand specific RNA-seq mapping

    Does anyone know how do mapping for strand specific RNA-seq data? which tools can work well? what the parameter of tools for strand specific infomation of RNA-seq data?
    Looking forward to your answer.
    Thank you very much! Best wishes!

  • #2
    Tophat is much preferable I guess. Because it can align RNA-Seq reads with juntion, as well as the --library-type parameter to tackle with strand-specific library.

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