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fix: changing to the 99% file and using a different column for fine mapping ingestion #70

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Nov 6, 2024
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fix: changing to the 99% file and using a different column for fine mapping ingestion #70

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4 changes: 2 additions & 2 deletions src/ot_orchestration/dags/config/finngen_ingestion.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -30,8 +30,8 @@ nodes:
step: finngen_finemapping_ingestion
step.finngen_finemapping_out: gs://finngen_data/r11/credible_set_datasets/susie
step.finngen_susie_finemapping_snp_files: gs://finngen-public-data-r11/finemap/full/susie/*.snp.bgz
# As directory contains SUSIE.cred.summary.tsv, SUSIE_99.cred.summary.tsv enure only non 99 credible sets are ingested,
step.finngen_susie_finemapping_cs_summary_files: gs://finngen-public-data-r11/finemap/summary/*SUSIE.cred.summary.tsv
# As directory contains SUSIE.cred.summary.tsv, SUSIE_99.cred.summary.tsv ensure only non 99 credible sets are ingested,
step.finngen_susie_finemapping_cs_summary_files: gs://finngen-public-data-r11/finemap/summary/*SUSIE_99.cred.summary.tsv
step.finngen_finemapping_lead_pvalue_threshold: 1e-5
step.finngen_release_prefix: FINNGEN_R11
step.session.start_hail: true
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