Chai Fungtammasan DNAnexus Team
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Recent activity by Chai Fungtammasan
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There are several options for this. I heard a good review for Hail regarding the QC and its flexibility. It needs serious learning and could be expensive if you aren?t sure what need to be done bec...
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QC isn't exactly a fix process though, so I would love to hear from other community members if they like to share their best practice. I would also recommend this thread by @Phil Greer? . It's a go...
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@UK Biobank DA Team?
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You can use Search for field 24304 for WGS and 23157-23159 for WES. https://biobank.ndph.ox.ac.uk/showcase/ This WES is the final, but there will be 500k WGS release later this year.
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I see. I misunderstood that you don't know which one is latest. For documentation, here is for WES https://dnanexus.gitbook.io/uk-biobank-rap/science-corner/whole-exome-sequencing-oqfe-protocol Fo...
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The eid in Showcase and RAP should the same for the same application. You can find reference in FAQ here. https://dnanexus.gitbook.io/uk-biobank-rap/frequently-asked-questions#for-a-given-applicati...
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You can user Table Exporter https://ukbiobank.dnanexus.com/app/table-exporter or dx extract_dataset https://documentation.dnanexus.com/user/jupyter-notebooks/dxjupyterlab-spark-cluster/exploring-an...
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We are developing and end-to-end target discovery workflow demo which would include PheWAS and expect to release that in Jan or Feb next year.From our experience PheWAS package in R is pretty easy ...
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The user can have multiple billing org, but each project can be associated with only one billing org at a time. I'm not sure about paying in advance. You can contact ukbiobank-support@dnanexus.com...
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Our support team is now in contact with you to verify the issue. If they could reproduce that, our Data team would get in touch with UKB to identify all problematic files and release the correct da...
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