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**Describe the bug**
[Load Electronic Health Records](https://github.com/hakyimlab/ukbrest/wiki/Load-real-UK-Biobank-data#load-electronic-health-records)
seems to suggest that it can load hesin da…
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Hi, I use RVTESTS latest version to read the UK biobank BGEN file, a command like this: rvtest --inBgen ukb_imp_chr1_v2.bgen --inBgenSample ukb_imp.sample --pheno bmi.pheno.ped --pheno-name bmi --ou…
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We are using `datalad` and` datalad ukb` extension to organize and arrange our raw data and projects from UK biobank. we are creating a superdataset with each subject as a subdataset that includes the…
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Dear Dr. Zhou and colleagues:
**Can we use GEMMA to run a GWAS on UK Biobank data**?
I understand that I shall run each chromosome separately.
But still, if GEMMA only takes plink bed/bim/fam…
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- addNewHES.py appears not to work with HES data downloaded from the UKB RAP
- it may fail entirely, or has also been reported to produce data with many missing dates
- this is likely related to dif…
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This is a broad issue that I'll use to document some of the problems that have come up when scaling out the UKB pipeline.
For convenience, here is a list of issues that have been filed as a result …
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See: https://github.com/related-sciences/ukb-gwas-pipeline-nealelab/issues/2#issuecomment-685093631
These should be converted to parquet as well.
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**Problem**
After bridge/intensity normalization of two datasets column MissingFreq is not updated with the new missing frequency.
**Solution**
Recompute missing frequency after normalizign the d…
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Context is the UKB dataset with 42k subdatasets.
Cloning a particular subject dataset takes less than a second (baseline):
```
datalad clone http://ukb.ds.inm7.de/... 0.47s user 0.19s system …
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I see the library expects the ukb phenotype files as .csv (PHENOTYPE_DATASET_CSV_FILE_PATH). Does the library also support the .tab files (R files)?