This is a cross-post from the Tuxedo Google group: https://groups.google.com/forum/#!to...rs/BtI3_fp_n-o
And a follow-up from a previous post
Hope my question makes sense. I have paired-end reads, but after trimming some reads are left as single-end. I know that tophat can take a mix of paired-end and single-end reads, but do I have to reverse the single-end reads from the rightmost pair (usually called the R2-file or something similar) if they have no mate?
Thanks,
Jon
And a follow-up from a previous post
Hope my question makes sense. I have paired-end reads, but after trimming some reads are left as single-end. I know that tophat can take a mix of paired-end and single-end reads, but do I have to reverse the single-end reads from the rightmost pair (usually called the R2-file or something similar) if they have no mate?
Thanks,
Jon
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