From 45af5a1eb2ad5347ad470fbdbd63026badbbee39 Mon Sep 17 00:00:00 2001 From: Mike Lin Date: Thu, 11 Apr 2024 11:17:30 -1000 Subject: [PATCH] set genotyper_config.required_dp=1 for DeepVariant config presets --- src/cli_utils.cc | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/src/cli_utils.cc b/src/cli_utils.cc index 62394a2c..59bc87bb 100644 --- a/src/cli_utils.cc +++ b/src/cli_utils.cc @@ -830,7 +830,7 @@ static const char* config_presets_yml = R"eof( monoallelic_sites_for_lost_alleles: true max_alleles_per_site: 32 genotyper_config: - required_dp: 0 + required_dp: 1 revise_genotypes: true snv_prior_calibration: 0.6 indel_prior_calibration: 0.45 @@ -879,7 +879,7 @@ static const char* config_presets_yml = R"eof( monoallelic_sites_for_lost_alleles: true max_alleles_per_site: 32 genotyper_config: - required_dp: 0 + required_dp: 1 revise_genotypes: true snv_prior_calibration: 0.6 indel_prior_calibration: 0.45 @@ -928,7 +928,7 @@ static const char* config_presets_yml = R"eof( monoallelic_sites_for_lost_alleles: true max_alleles_per_site: 32 genotyper_config: - required_dp: 0 + required_dp: 1 revise_genotypes: true snv_prior_calibration: 0.375 indel_prior_calibration: 0.375