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_tl;dr
The current variant index has several shortcomings that affect our production infrastructure, our ability to update it to a newer GnomAD version and our ability to consider rare variants withi…
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## Overview
We have processed the GWAS summary statistics for many dozens of traits using a pipeline that performs functionally-informed fine-mapping with PolyFun. Overall this has been very succes…
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When running the command:
```
plink2 \
--bgen /well/ukbb-wtchg/v3/imputation/ukb_imp_chr${chr}_v3.bgen ref-unknown \
--sample /well/ckb/shared/ukb_dataset_210403/ukb22828_c1_b0_v3_…
sahwa updated
2 years ago
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Getting this error in step 2, trying to run burden tests. REGENIE v3.2.1.gz
ERROR: annotation information could not be read. Perhaps check variant IDs matches those in the genotype file?
Th…
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Hey everyone, I just have a question about my preprocessing in rfMRI signal.
The question is about getting time-series data of the rfMRI. I am wondering how should I get my time-series results? Wh…
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Action item:
We need to designate the location within the NeuroHub UK Biobank directory tree for the derived data:
We have tractoflow data that needs to go somewhere official, and most of the squa…
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Hi,
I have been able to estimate the beta-auto using summary statistics from pan-ukbb with the LD-reference provided in the ldpred2 paper. For the Celiac disease which is a binary phenotype, sign of…
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### What you did:
We want to use the ancestry classification tool to predict genetic ancestry of UKBB samples. (https://gnomad.broadinstitute.org/news/2021-09-using-the-gnomad-ancestry-principal-co…
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Hi,
I'm trying to work with the imputed data from UK Biobank. I'm using the RStudio workbench through dnanexus (as data can't be downloaded). I keep running into errors with space to create the .bk …