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  • Strand Rule Problem via rseqc in single end reads

    Built an rna-seq pipeline for paired end reads.

    Got single end data and had to revise.

    Only problem I have now is the rseqc infer_Experiment strand_rule.

    I am trying to run bam2big.py and it's not recognizing the strand_rule I'm inputting.
    What are the strand rule options for single end reads?
    Aren't they just, ++,-- or +-,-+?

    Anyone encounter a problem like this before? Or is it always none because it's a single end read?

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