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Hi,
In the recent release of 500,000 genomes, the UKB has provided SV calls, but only in bgzipped sample-level vcf files.
I've tried merging these files in groups to create a pVCF- after unzippi…
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A user wrote in asking about the allele numbers (AN) for this [variant](https://gnomad.broadinstitute.org/variant/3-10052405-G-A?dataset=gnomad_r4). I realized from their question that the non-UKB A…
ch-kr updated
3 months ago
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hi there,
I am a ALLOFUS user, was trying to run this pipeline in the workbench. i created my own config file, like this,
%%writefile allofus_test.config
workDir = "gs://fc-secure-203a5a33-…
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These files have been removed from the UKB data showcase website.
- [x] Temporarily update functions to download the old files from https://github.com/rmgpanw/ukb_backup_files
- [ ] Rewrite functi…
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Hi,
I am trying to run the MAGMA.Celltyping::celltype_associations_pipeline with the following code:
```
MAGMA_results
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follow the steps, PostgreSQL was established
when doing initiation, failed with error : ERROR: row is too big: size 8880, maximum size 8160
```
docker run --rm --net ukb \
-v /raid1/ukbiobank/p…
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##### Description
Version 7.7.0:
**Generating java.net.URLEncoder.encode(String, String) instead of the preferable one java.net.URLEncoder.encode(String, Charset)**
Problem is when I am using o…
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Hi SDSC team,
I am wondering what does it mean for "CF" job state?
Thanks.
Shicheng
```
(base) [sguo2@login01 step1]$ squeue -u sguo2
JOBID PARTITION NAME USER ST…
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To run a basic GWAS on UKB data, here are some of the operations we'll need support for:
- [X] bgen reader (https://github.com/pystatgen/sgkit-bgen/pull/1)
- [X] plink reader (https://github.com/p…
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I want to perform reconstruction only using a similar reconstruction pipeline as the default `mrtrix_multishell_msmt_hsvs` JSON but without doing the `tck2connectome`. The JSON file was named `new_wor…