Answers.Body: <p><a href="https://bioconductor.org/packages/release/bioc/vignettes/QuasR/inst/doc/QuasR.html" rel="nofollow noreferrer">The QuasR vignette</a> tells you how to run it. The samples file should contain a list of your samples and fastq files.</p>
  
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Body: <p>I'm an absolute beginner trying to solve this question &quot;Align the trimmed and untrimmed reads using QuasR and plot alignment statistics, did the trimming improve alignments?&quot;</p>
  <p>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.</p>
  <p>I asked google but I didn't find the answer</p>
  
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Comments.Text: 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.
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Tags: <r><rna-seq><phylogenetics><homework>
Title: how to create "sample file" for the qAlign() function after trimming the reads in R
ThreadText: # how to create "sample file" for the qAlign() function after trimming the reads in R
  
  (Asked by: username_0 on 2022-05-14)
  
  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
  
  **Tags:** r, rna-seq, phylogenetics, homework
  
  > **Comments:**
  > **username_1**: 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.  
  > **username_2**: Please consider the answer below and whether you wish to upvote/accept.  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_3 on 2022-05-14. Score: 1
  
  [The QuasR vignette](https://bioconductor.org/packages/release/bioc/vignettes/QuasR/inst/doc/QuasR.html) tells you how to run it. The samples file should contain a list of your samples and fastq files.
  
  
  ---
  
  