Ondrej Klempir DNAnexus Team
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Recent activity by Ondrej Klempir
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annotated_mt.vep.show() showed the annotated Hail matrix
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Hi @Akhil Pampana?, can you share more? Which field id? For what purpose?
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Hello, I think that dxdata is mostly intended for accessing pheno data, not raw files (such as vcf etc.). What I would do, I would check if there is any recommended function for working with pVCF i...
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Hi Alexandros, If you want to run Swiss Army Knife for multiple files, my idea for processing each file one by one would be to include there a for loop and iterate over each file, e.g. for file in ...
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Actually it could be useful - .gz means gzip, therefore gzip could produce a smaller file. Nifti is volume data, so it can take up a fair bit of permanent storage. Zipping it is purely for reducing...
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When I write a WDL code, I normally first compile my code locally using Cromwell and check for WDL code validity via WOMtool. WOMtool could tell you more about the syntax issues. https://github.com...
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Hi {@005t000000BBwSeAAL}?, I am sharing my idea. I first checked that page: https://biobank.ctsu.ox.ac.uk/crystal/gsearch.cgiI am not sure about background data in this service, but it seems to me ...
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I believe we can use it as it is. Data was qced already on the UKB side (see the doc I shared last time). You can read this article, presenting a real analysis:https://www.medrxiv.org/content/10.11...
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For NMR metabolites, you may consult this UKB page:https://biobank.ndph.ox.ac.uk/showcase/label.cgi?id=220 See Tabs:A) Data fields - contains all the NMR metabolomics data fields + details, e.g. hi...
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Hi @Yimei Huang?, this is great! Thanks for sharing this with Community.
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