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Hi!
I'm trying to run some one multisample (trio) vcf from WGS in genomizer.
The files are aligned using the hg38 reference from Cavatica (Alias to broad-references/Homo_sapiens_assembly38.fasta on …
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Running the `genes` task fails
`./deployctl data-pipeline run --cluster genes`
Stack trace:
```
2022-06-22 17:06:59,249 - gnomad_data_pipeline - INFO - Running prepare_gtex_v7_expression_d…
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@theferrit32 will produce a jupyter notebook that demonstrates that the 10-20 expected json statements match the results returned from the forthcoming gnomad api changes for this project. This depend…
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When starting a Dataproc cluster for the GRCh38 ClinVar data pipeline ([deploy/docs/UpdateClinvarVariants.md](https://github.com/broadinstitute/gnomad-browser/blob/main/deploy/docs/UpdateClinvarVarian…
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It seems that the current germline analysis is filtering out common SNPs via a GNOMAD filter here:
https://github.com/wustl-oncology/analysis-wdls/blob/773feeb3a02c90a5d0272e00232a4f1debb9bb3b/defi…
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Great package, it would be useful to be able to get protein changes from GnomAD exomes for downstream tasks. Is this something you support?
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When I axed the setup subcommand, I missed that we were imperatively creating a proxy-ips configmap that causes the browser to fail deployment if it doesn't exist.
This configmap is used so that we…
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Thanks for making these scripts available! Is there any documentation or a tutorial available on how to use these gnomad_qc scripts? An overview and some examples on how these scripts work would be h…
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I just wanted to check description of these columns. Is these columns same as gene classification introduced by the Gnomad and used in their paper? I didn’t find information about them in readme or ma…
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Related to https://github.com/broadinstitute/gnomad_production/issues/707: we received feedback from external users that they prefer to use the term "genetic ancestry" rather than "population" or "a…
ch-kr updated
12 months ago