Lea K. Data Analyst UKB Community team

Hi Sai,You can use PLINK to extract genetic variants from WGS data. You may find the SNP extraction notebook useful, it extracts variants from the genotype data. You can do a similar analysis on th...

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• Edited 13 February 2025 09:47
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Hi Mohammad,You may find the SNP filtering notebook useful to filter individual SNPs from the genotype data. Hope this helps.Thank you for using the community forum. 

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• 13 February 2025 09:40
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Hi Yiwey,You can run sqlite on python in a JupyterLab instance. You can also create and use a Docker image.Hope this helps. Thank you for using the community forum.

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• 04 February 2025 09:44
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Hi James,The UK Biobank GitHub includes useful notebooks to guide you on using the RAP and perform your analysis. You might find the A109_Find-participant-bulk-files.ipynb helpful. The UK Biobank G...

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• 04 February 2025 09:34
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Hi Giovanni,After extracting data from field 41270, the different ICD-10 code instances for each participant are stored in a single column, separated by a pipe (“|”). The order of these diagnoses c...

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• 20 January 2025 11:58
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Hi Giovanni,After extracting the data from fields 41270 and 41280, you can match a specific ICD code with its corresponding date using the array structure. The matching is based on the same eid, in...

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• 07 January 2025 13:55
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Hi Shiqi,Table-exporter is a helpful tool to extract the date of ICD-10 diagnosis. You may find the A110_Export_participant_data.Rmd notebook helpful for using table-exporter on RStudio. I hope thi...

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• 13 December 2024 12:42
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Hi Sasha,The field name follows the pattern p<field id>_i<instance>_a<array>, where p refers to the participant table. You may find the A110_Export_participant_data.Rmd notebook helpful for using t...

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• 13 December 2024 12:33
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Hi Hangkai,Unfortunately, SAS is not currently supported by the RAP. However, thank you for your recommendation, we will consider this for future enhancements. Thank you for using the Community for...

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• 27 November 2024 10:20
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