Ondrej Klempir DNAnexus Team
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Recent activity by Ondrej Klempir
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If you want to stick with downstream analysis in Cohort Browser, here are some other ideas which could work around: For a short set, you can manually enter them into the Sample ID (EID) field one ...
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To use it with dx run, I believe that syntax would be similar to what we showed during the Large scale data analysis webinar, e.g. for setting timeoutPolicy for Regenie dx run app-regenie --extra-a...
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GIven this doc page: https://documentation.dnanexus.com/developer/api/running-analyses/workflows-and-analyses#execution-policy, I would try to specify retry policy as JSON.
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For hundreds to thousands EIDs, I would use JupyterLab and dxdata as you suggested. I think we answered similar question here https://community.dnanexus.com/s/question/0D5t000003jkhhqCAA/hi-questio...
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Are you referring to this doc page? https://dnanexus.gitbook.io/uk-biobank-rap/science-corner/whole-exome-sequencing-oqfe-protocol/protocol-for-processing-ukb-whole-exome-sequencing-data-sets#conve...
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In the text above, I did not mention (Spark based)-JupyterLab, which has an interactive notebook interface and Terminal as well. However, I wonder if anyone of you have any idea how to run your own...
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For this question, you may contact access@ukbiobank.ac.uk. Please let us then know if you get any answer, I would be also interested to get more info about this.
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In Cohort Browser, you may work with fields such as: Reported occurrences of cancerhttp://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=40009 Date of cancer diagnosishttp://biobank.ctsu.ox.ac.uk/cryst...
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Hi {@005t000000BBxUMAA1}?, I believe that "("cannot download data, can only access data via the RAP)" means you cannot download data outside of RAP, but using "dx download", i.e. to transfer data f...
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In JupyterLab, there are basically two approaches of Accessing data:https://documentation.dnanexus.com/user/jupyter-notebooks#accessing-data I would also recommend reading this whole page: https://...
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