Lora B
UKB Community team
Data Analyst
Comments
Recent activity by Lora B
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Requesting a higher spending limit would be an option, or splitting into smaller jobs whenever possible.
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- 1 vote
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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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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/sho...
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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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Unfortunately, it is not possible to continue the job after it has failed. We would recommend building in intermediate save points whenever possible. Please reach out via the “Submit a ticket” butt...
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Thank you for highlighting potential issues with some variants. The results from both WES and WGS methods underwent QC by the providers and the consortiums generating the data, this included assess...
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Hi Eric, Thank you for your question! Generally, the UKB cohort comprises older individuals, which may account for the high prevalence of dyslipidaemia; is the prevalence higher than you would exp...
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Hi Jeremy After some bioinformatics advice, our guess is that the problem may be due to HAIL not having access to the dx fuse system, which lets you use the /mnt/project area directly. An alternati...
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Hi Jeremy - thank you for your question! I might need to get some advice from our bioinformatician on best approaches to using the pVCF files with HAIL - will update!
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Thank you for your questions! Other members of the UK Biobank Data Analyst Team will be around to answer your questions later this week!
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