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  • PHLAT genotyping with scRNA-seq (10x)

    Hi,

    Can PHLAT (HLA genotyping) be used with single cell RNA-seq (e.g. 10x platform)?

    Thanks and good day.

  • #2
    malonzm1 you should be able to do this. I thought I saw a pre-print on something like this. I can't remember if it's this one (https://www.biorxiv.org/content/10.1...06.09.495569v1) or not. Maybe I can dig it up if this doesn't look right to you.

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    • #3
      Hi @GenomicSeq,

      Thanks! Would you know if it requires first demultiplexing the 10x fastq files?

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      • #4
        What about smart-seq2 and fluidigm C1?

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        • #5
          malonzm1 sorry for the late response. I just realized you replied. But yeah you would have to demultiplex them. Although I'm not super familiar with the Fluidigm C1. What specifically is your question with that?

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