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Credible set pileups #73

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project-defiant opened this issue Nov 8, 2024 · 1 comment
Open

Credible set pileups #73

project-defiant opened this issue Nov 8, 2024 · 1 comment

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@project-defiant
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project-defiant commented Nov 8, 2024

Context

Two colocalisation steps defined in genetics_etl are failing to complete when running DAG with eqtlgen credible sets. This is a common problem that happend also multiple times when running the DAG with increased amount of credilbe sets - see #63

The aim of this issue is to explore the size of credible sets, their counts per chromosome and the pileups of snps across the genome.

@project-defiant
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project-defiant commented Nov 8, 2024

Release 24.10_freeze6

Credible set path gs://ot_orchestration/releases/24.10_freeze6/credilbe_set
Number of credilbe sets after credible_set_validation 2534545

Warning

The alternative contigs 17_KI270857v1_alt, 22_KI270928v1_alt, 7_KI270803v1_alt, 14_KI270846v1_alt, 15_KI270850v1_alt are assigned

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