Ben Busby DNAnexus Team
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Recent activity by Ben Busby
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There are a couple options here. One would be to manually edit the SQL Another would be to simply rerun the filters. All that said, the cohorts are save-able, and provenance information is there...
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Hi! Instead of bits and pieces, my friend @Ondrej Klempir? put everything in one place, using koalas: # after phenotypes are successfuly loaded into a Spark dataframe (https://github.com/dnanexu...
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Check and lmk if the answer is not there. Ill be back on tomorrow morning at the latest!
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Catarina, this may also be helpful: field_names = [] for feature in feature_list: print(feature) print(field_names_for_id(feature_code_mapping[feature])) field_names+=field_names_for_id(fe...
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This is probably obvious, but (for others) you can check by running dataset.entities
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are you certain all of the fields you wanted were selected in showcase?If you just got access to them, you may have to redispense doc on that for completeness: https://dnanexus.gitbook.io/uk-bioban...
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agreed, dont share the IDs hereI just needed to know which IDs
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I dont see the file. Can you tell me which IDs you are using?
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Aha, I think this should answer your question, please lmk if it doesn't: https://github.com/dnanexus/OpenBio/blob/master/UKB_notebooks/ukb-rap-pheno-basic.ipynb
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Hi Catarina! let me take a look!
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