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I'm an absolute beginner trying to solve this question "Align the trimmed and untrimmed reads using QuasR and plot alignment statistics, did the trimming improve alignments?"

I did trim the reads using the preprocessReads() function, now I want to align the output but the qAlign() only takes a samples file and genome file. however, my trimmed reads are two separate files how can I align them.

I asked google but I didn't find the answer

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  • $\begingroup$ Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking. $\endgroup$
    – Community Bot
    Commented May 14, 2022 at 16:33
  • $\begingroup$ Please consider the answer below and whether you wish to upvote/accept. $\endgroup$
    – M__ ♦
    Commented Sep 15, 2023 at 20:41

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The QuasR vignette tells you how to run it. The samples file should contain a list of your samples and fastq files.

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