Fragments in FPKM is defined as the fragment of cDNA that is encompassed between a pair of reads in paired end data. However, when the data is single end reads, what is a fragment?
Is it then the next consecutive single end read that makes a fragment or does it converge back to a single read? This is not indicated in the paper either.
Is it then the next consecutive single end read that makes a fragment or does it converge back to a single read? This is not indicated in the paper either.
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