Rachael W
UKB Community team
Data Analyst
Comments
Recent activity by Rachael W
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This reference item that might be useful for finding what ICD 9 codes to look for: Resource 592 https://biobank.ndph.ox.ac.uk/showcase/ukb/auxdata/primarycare_codings.zip provides mappings between...
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Hi {@005t000000BBrFkAAL}? For information about when and where the ICD 9 codes were used, see https://biobank.ndph.ox.ac.uk/showcase/exinfo.cgi?src=Data_providers_and_dates This tells us that all...
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To find ALL participants that have ever had a particular disease, you would need to use almost ALL the fields. However, for non-Cancer diseases you might find Category 1712 First Occurrences fields...
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Hi Akhil,No, there is not. All the Genomics-related datasets that the UKB currently provides are listed in Showcase within Category 100314 and its sub-categories, see https://biobank.ndph.ox.ac.uk/...
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hi Marianna, I asked our BioInformatician about your SAK question, and he suggests: This /mnt/project/Bulk/Whole genome sequences/Whole genome GraphTyper joint call pVCF/Plink_files/ Markers_reco...
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I can't find azure:mem3_ssd2_gpu4_x64 in the list of available instance-types for JupyterLab in the UKB RAP. Can you find it on the RAP? It might not be available for UKB RAP (only for some ot...
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Hi Monika, I took your question to our BioInformatician, and he suggests a few ideas: All looks good in these scripts. swiss-army-knife utility should upload all artefacts (i.e. files created in...
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Have you seen these dnanexus notebooks, https://github.com/dnanexus/OpenBio/blob/master/UKB_notebooks/ukb-rap-pheno-basic.ipynb There are also some newly-released example notebooks on GitHub that y...
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It is not possible to retrieve the raw values from the NPX values, and there is no intention to release the raw values in the forseeable future.
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Hi Ra S, The Gate link says Currently, the only difference between this and the regular SAIGE job is that for step1, two additional arguments are usedeventTimeCol = ??,eventTimeBinSize = 1andtrait...
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