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  • What kind of encoding method Illumina Genome Analyzer is using?

    Hi, everyone. I am now working on NGS preprocessing of data. When I checked GEO for illumina platform information. I can find that some of the data used Illumina Genome Analyzer II and some just used Illumina Genome Analyzer. Since I am doing quality control, I need to be full aware of the correspondent encoding methods, namely, ASCII+33 and ASCII+64. I know that 64 is for Illumina 1.5+ and 33 is for Illumina 1.9+. I was wondering if Illumina Genome Analyzer II is using 33 and Illumina Genome Analyzer is using 64. Thanks for answering this stupid question.

  • #2
    If that data you are looking at is a couple of years old then most likely it is using the Illumina (1.5+) fastq format. Data from GA and GAII from that vintage should fall in that category.

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    • #3
      Originally posted by GenoMax View Post
      If that data you are looking at is a couple of years old then most likely it is using the Illumina (1.5+) fastq format. Data from GA and GAII from that vintage should fall in that category.
      Thanks you for your help!

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