diff --git a/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv b/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv index bec89f8..6de5e38 100644 --- a/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv +++ b/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv @@ -2,7 +2,7 @@ filename,in_freq_info_key,in_allele_count_info_key,out_freq_info_key,out_allele_ grch37_svdb_query_decipher_-v1.0.0-.vcf,FRQ,OCC,decipherAF,decipherOCC grch37_svdb_query_clingen_cgh_benign_-v1.0.0-.vcf,,,clingen_cgh_benign,clingen_cgh_benign grch37_svdb_query_clingen_ngi_-v1.0.0-.vcf,FRQ,OCC,clingen_ngiAF,clingen_ngiOCC -grch37_loqusdb_sv_variants_export-20250203-.vcf,Frq,Obs,clinical_genomics_loqusFrq,clinical_genomics_loqusObs +grch37_loqusdb_sv_variants_export-20250611-.vcf,Frq,Obs,clinical_genomics_loqusFrq,clinical_genomics_loqusObs grch37_svdb_query_clingen_cgh_pathogenic_-v2.0.0-.vcf,,,clingen_cgh_pathogenic,clingen_cgh_pathogenic grch37_gnomad_reformated_sv_-r2.1-.vcf,AF,AC,gnomad_svAF,gnomad_svAC grch37_mip_sv_svdb_export_-2018-10-09-.vcf,FRQ,OCC,clinical_genomics_mipAF,clinical_genomics_mipOCC diff --git a/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv.md5 b/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv.md5 index 1b97784..7c3230c 100644 --- a/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv.md5 +++ b/rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv.md5 @@ -1 +1 @@ -9ead473bd130e9e15e6e39dfd8007995 rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv +0bc7dfa25a8080f79fbefb60c935e8d0 rare-disease/annotation/grch37_svdb_query_dbs_-v1.0-.csv diff --git a/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml b/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml index 8c89924..9e7742a 100644 --- a/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml +++ b/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml @@ -15,7 +15,7 @@ ops=["self", "self", "self", "self"] names=["SWEGENAF", "SWEGENAAC_Hom", "SWEGENAAC_Het", "SWEGENAAC_Hemi"] [[annotation]] -file="grch37_loqusdb_snv_indel_variants_export-20241004-.vcf.gz" +file="grch37_loqusdb_snv_indel_variants_export-20250611-.vcf.gz" fields = ["Frq", "Obs", "Hom"] ops=["self", "self", "self"] names=["Frq", "Obs", "Hom"] diff --git a/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml.md5 b/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml.md5 index 99bfb42..5ab3164 100644 --- a/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml.md5 +++ b/rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml.md5 @@ -1 +1 @@ -e2ca3aacc00fce4b33d3988726e72d91 rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml +e2975200710d3d322f8f7675d5cc9b7c rare-disease/annotation/grch37_vcfanno_config_-v1.23-.toml diff --git a/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt b/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt index ac1e0f0..019524b 100644 --- a/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt +++ b/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt @@ -8,7 +8,7 @@ grch37_gnomad_genomes_mt_-r3.1-.vcf.gz grch37_gnomad_genomes_mt_-r3.1-.vcf.gz.tbi grch37_gnomad_reformated_-r2.1.1-.vcf.gz grch37_gnomad_reformated_-r2.1.1-.vcf.gz.tbi -grch37_loqusdb_snv_indel_variants_export-20250203-.vcf.gz -grch37_loqusdb_snv_indel_variants_export-20250203-.vcf.gz.tbi +grch37_loqusdb_snv_indel_variants_export-20250611-.vcf.gz +grch37_loqusdb_snv_indel_variants_export-20250611-.vcf.gz.tbi grch37_spidex_public_noncommercial_-v1.1-.tsv.gz grch37_spidex_public_noncommercial_-v1.1-.tsv.gz.tbi diff --git a/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt.md5 b/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt.md5 index 5952f22..229637f 100644 --- a/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt.md5 +++ b/rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt.md5 @@ -1 +1 @@ -c18ac0f5b77c15037bfec7f0d35501bf rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt +a94667756c88f9b2058e4702fd2ed040 rare-disease/annotation/grch37_vcfanno_resources_-v1.0-.txt diff --git a/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv b/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv index b4223d8..de15fc1 100644 --- a/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv +++ b/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv @@ -1,7 +1,7 @@ vep_files gnomad_pli_per_gene_-r2.1.1-.txt -grch37_clinvar_reformatted_-20250202-.vcf.gz -grch37_clinvar_reformatted_-20250202-.vcf.gz.tbi +grch37_clinvar_reformatted_-20250608-.vcf.gz +grch37_clinvar_reformatted_-20250608-.vcf.gz.tbi grch37_dbnsfp_-v3.5a-.txt.gz grch37_dbnsfp_-v3.5a-.txt.gz.tbi grch37_genomic_superdups_reformated_-20181009-.bed.gz diff --git a/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv.md5 b/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv.md5 index 95e443a..fddd3f5 100644 --- a/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv.md5 +++ b/rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv.md5 @@ -1 +1 @@ -5b08a4963d0e3060ab673de6d0b96c44 rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv +cbace97ee9e6bcffde8e7f064a95d527 rare-disease/annotation/grch37_vep110_resources_-v1.0-.csv