bowtie2 and then HISAT2? What does it mean in Data processing details on a paper?

IMHO that must be a mistake: the data seems to be RNA so I would’ve directly gone for TopHat2 (or HISAT2).

(Unless they wanted to run Fastqc in BAM, not fastq mode – in which case Tophat2’s bam would’ve worked too?)

before adding your answer.

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