Using Illumina dragen

Fereshteh Izadi

Hi

Can I transfer some fastq files into my UK-BRAP and analyse that with Illumina dragen pipeline? Is Illumina dragen pipeline is available in DNANexus to use?

Comments

5 comments

Date Votes
  • Comment author
    Lora B The helpers that keep the community running smoothly. UKB Community team Data Analyst

    Hi,

    Unfortunately, the DRAGEN pipeline is not available within the RAP. However, any outputs from the DRAGEN pipeline can be ingressed into the RAP.

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  • Comment author
    Fereshteh Izadi

    Then how I can run DRAGEN pipeline on my data? What are the possible ways?

    Thank you

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  • Comment author
    Lora B The helpers that keep the community running smoothly. UKB Community team Data Analyst

    Hi,

    Is the aim to run the DRAGEN pipeline on UK Biobank data or data you have generated? For UKB WGS data, DRAGEN pipeline outputs can be found within Category 185 (https://biobank.ndph.ox.ac.uk/showcase/label.cgi?id=185).

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  • Comment author
    Fereshteh Izadi

    The aim is to run DRAGEN pipeline on fresh data from TCGA for which there is no DRAGEN pipeline outputs yet and we want to be the first to run DRAGEN pipeline on this data.

    Thanks a lot

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  • Comment author
    Lora B The helpers that keep the community running smoothly. UKB Community team Data Analyst

    Hi,

    Unfortunately, we cannot provide advice on processing non-UKB data on the DRAGEN pipeline - it may be best to contact the original data provider (TGCA) or Illumina support. 

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