added gnomad v4 annotation file, prefix, and additional subpopulations (

#757)
broadinstitute · Dec 19, 2024 · fde9e1c · fde9e1c
1 parent 688db3e
commit fde9e1c
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/inputs/values/resources_hg38.json b/inputs/values/resources_hg38.json
@@ -17,9 +17,9 @@
   "depth_exclude_list_index" : "gs://gatk-sv-resources-public/hg38/v0/sv-resources/resources/v1/depth_blacklist.sorted.bed.gz.tbi",
   "empty_file" : "gs://gatk-sv-resources-public/hg38/v0/sv-resources/resources/v1/empty.file",
   "exclude_intervals_for_gcnv_filter_intervals" : "gs://gatk-sv-resources-public/hg38/v0/sv-resources/resources/v1/hg38.wgs.blacklist.wPAR.bed",
-  "external_af_population" : ["ALL", "AFR", "AMR", "EAS", "EUR"],
-  "external_af_ref_bed" : "gs://gcp-public-data--broad-references/hg38/v0/sv-resources/resources/v1/gnomad_AF/gnomad_v2.1_sv.sites.GRCh38.bed.gz",
-  "external_af_ref_bed_prefix" : "gnomad_v2.1_sv",
+  "external_af_population" : ["ALL", "AFR", "AMR", "EAS", "EUR", "MID", "FIN", "ASJ", "RMI", "SAS", "AMI"],
+  "external_af_ref_bed" : "gs://gatk-sv-resources-public/gnomad_AF/gnomad_v4_SV.Freq.tsv.gz",
+  "external_af_ref_bed_prefix" : "gnomad_v4.1_sv",
   "genome_file" : "gs://gcp-public-data--broad-references/hg38/v0/sv-resources/resources/v1/hg38.genome",
   "hervk_reference": "gs://gatk-sv-resources-public/hg38/v0/sv-resources/resources/v1/HERVK.sorted.bed.gz",
   "line1_reference": "gs://gatk-sv-resources-public/hg38/v0/sv-resources/resources/v1/LINE1.sorted.bed.gz",