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  • salvadorherrandoperez
    Junior Member
    • Jan 2018
    • 2
    #1

    Fastqc

    Dear members.
    I am using FASTQC* for the first time (in Galaxy).
    Is there an online resource showing how to deal with a range of RNAseq quality issues to get a feel of how FASTQC works and could be applied to my data**.
    Many thanks indeed.
    Salva

    * https://www.bioinformatics.babraham....ojects/fastqc/
    ** transcriptomes (wild reptile species in climate-change research) obtained through Ilumina sequencers.
    Salvador Herrando-Pérez PhD. MPhil.
    Department of Biogeography and Global Change
    Spanish National Research Centre
    Madrid, Spain
    Email: [email protected]
    Tags: fastqc
  • GenoMax
    Senior Member
    • Feb 2008
    • 7142
    #2
    Read these posts. Pay special attention to ones for duplicates, positional sequence bias at beginning of RNAseq reads.

    Comment

    • salvadorherrandoperez
      Junior Member
      • Jan 2018
      • 2
      #3
      thanks

      great resource - thanks.
      Salvador Herrando-Pérez PhD. MPhil.
      Department of Biogeography and Global Change
      Spanish National Research Centre
      Madrid, Spain
      Email: [email protected]

      Comment

      • GenoMax
        Senior Member
        • Feb 2008
        • 7142
        #4
        Word of caution. Having a test of two "fail" (red X) in FastQC does not make your data automatically bad. If you have specific questions about anything post here with screenshots of FastQC data.

        Comment

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