Genome In A Bottle - v2.0 Genome Stratifications (Deprecated)
Data and Resources
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GIAB FTP Site
NIH-NCBI hosted FTP site provided to facilitate user access. Files on the FTP...
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Code repository
Version controlled repository with code used to generate the stratification...
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Web ResourceGZ
GRCh37_notinrefseq_union_cds.bed.gz
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GRCh37_refseq_cds.bed.gz
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create_GRCh37_cds_bed.Rmd
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create_GRCh37_cds_bed.pdf
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v2.0-GRCh37-FunctionalRegions-README.txt
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GRCh37_BadPromoters.gz
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v2.0-GRCh37-FunctionalTechDifficult-README.txt
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GRCh37_gc15_slop50.bed.gz
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GRCh37_gc85_slop50.bed.gz
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GRCh37_gclt25orgt65_slop50.bed.gz
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GRCh37_gclt30orgt55_slop50.bed.gz
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v2.0-GRCh37-GCcontent-README.txt
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GRCh37_HG002_GIABv3.3.2_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG001_GIABv3.2.2_compoundhet_slop50.bed.gz
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GRCh37_gc15to20_slop50.bed.gz
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GRCh37_gc20to25_slop50.bed.gz
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GRCh37_gc25to30_slop50.bed.gz
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GRCh37_gc30to55_slop50.bed.gz
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GRCh37_gc55to60_slop50.bed.gz
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GRCh37_gc60to65_slop50.bed.gz
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GRCh37_gc65to70_slop50.bed.gz
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GRCh37_gc70to75_slop50.bed.gz
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GRCh37_gc75to80_slop50.bed.gz
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GRCh37_gc80to85_slop50.bed.gz
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GRCh37_segdups_gt10kb.bed.gz
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GRCh37_lowmappabilityall.bed.gz
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v2.0-GRCh37-SegDup-README.txt
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GRCh37_HG002_GIABv3.3.2_complexandSVs.bed.gz
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GRCh37_HG002_GIABv4.1_CNV_CCSandONT_elliptical_outlier.bed.gz
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GRCh37_HG002_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh37_SimpleRepeat_imperfecthomopolgt10_slop5.bed.gz
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GRCh37_HG002_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh37_HG002_GIABv3.3.2_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh37_SimpleRepeat_quadTR_20to50_slop5.bed.gz
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GRCh37_SimpleRepeat_quadTR_51to200_slop5.bed.gz
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GRCh37_HG002_GIABv4.1_CNV_gt2assemblycontigs_ONTCanu_ONTFlye_CCSCanu.bed.gz
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GRCh37_SimpleRepeat_quadTR_gt200_slop5.bed.gz
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GRCh37_SimpleRepeat_triTR_15to50_slop5.bed.gz
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GRCh37_HG002_GIABv4.1_complexandSVs.bed.gz
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GRCh37_HG002_GIABv4.1_CNVsandSVs.bed.gz
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GRCh37_SimpleRepeat_triTR_51to200_slop5.bed.gz
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GRCh37_SimpleRepeat_triTR_gt200_slop5.bed.gz
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GRCh37_HG001_GIABv3.2.2_varswithin50bp.bed.gz
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GRCh37_HG004_GIABv3.3.2_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG004_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh37_HG004_GIABv3.3.2_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh37_notinAllHomopolymers_gt6bp_imperfectgt10bp_slop5.bed.gz
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GRCh37_notinAllTandemRepeatsandHomopolymers_slop5.bed.gz
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GRCh37_HG001_GIABv3.3.2_RTG_PG_v3.3.2_SVs_notin_alldifficultregions.bed.gz
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GRCh37_HG001_GIABv3.3.2_RTG_PG_v3.3.2_SVs_alldifficultregions.bed.gz
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GRCh37_HG002_GIABv4.1_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG002_GIABv4.1_comphetindel10bp_slop50..bed.gz
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v2.0-GRCh37-LowComplexity-README.txt
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GRCh37_HG002_GIABv4.1_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG002_GIABv4.1_othercomplexwithin10bp_slop50.bed.gz
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GRCh37_HG004_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh37_HG005_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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GRCh37_HG005_GIABv3.3.2_comphetsnp10bp_slop50.bed.gz
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GRCh37_L1H_gt500.bed.gz
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GRCh37_HG001_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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GRCh37_HG001_GIABv3.3.2_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG002_GIABv4.1_complexindel10bp_slop50.bed.gz
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GRCh37_HG002_GIABv4.1_inversions_slop25percent.bed.gz
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GRCh37_HG002_GIABv4.1_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG005_GIABv3.3.2_complexandSVs.bed.gz
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GRCh37_HG005_GIABv3.3.2_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG005_HG006_HG007_MetaSV_allsvs.bed.gz
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GRCh37_HG005_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh37_MHC.bed.gz
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GRCh37_VDJ.bed.gz
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GRCh37_allOtherDifficultregions.bed.gz
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GRCh37_HG001_GIABv3.3.2_complexandSVs.bed.gz
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GRCh37_HG001_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh37_HG002_GIABv4.1_snpswithin10bp_slop50.bed.gz
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GRCh37_HG005_GIABv3.3.2_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG005_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh37_contigs_lt500kb.bed.gz
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GRCh37_gaps_slop15kb.bed.gz
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GRCh37_hg38_minimap2_asm20_N10_gt1contig_gt1kb.bed.gz
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GRCh37_hg38_minimap2_asm20_N10_nocovgt1kb.bed.gz
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GRCh37_HG001_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh37_HG001_PG2016-1.0_comphetindel10bp_slop50.bed.gz
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GRCh37_HG002_HG003_HG004_allsvs.bed.gz
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GRCh37_HG002_Tier1plusTier2_v0.6.1.bed.gz
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v2.0-GRCh37-GenomeSpecific-README.txt
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Web Resourcetext/x-python
findSimpleRegions_quad.py
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GRCh37_hs37d5_decoy_alignments.bed.gz
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GRCh37_missing_and_multiple_alignments_of_GRCh38.bed.gz
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v2.0-GRCh37-OtherDifficult_README.txt
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GRCh37_HG002_expanded_150_Tier1plusTier2_v0.6.1.bed.gz
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GRCh37_HG003_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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GRCh37_AllHomopolymers_gt6bp_imperfectgt10bp_slop5.bed.gz
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GRCh37_chainSelf.bed.gz
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GRCh37_HG001_PG2016-1.0_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG001_PG2016-1.0_complexindel10bp_slop50.bed.gz
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GRCh37_HG003_GIABv3.3.2_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG003_GIABv3.3.2_complexandSVs.bed.gz
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GRCh37_AllTandemRepeats_201to10000bp_slop5.bed.gz
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GRCh37_AllTandemRepeats_51to200bp_slop5.bed.gz
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GRCh37_chainSelf_gt10kb.bed.gz
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GRCh37_HG001_PG2016-1.0_snpswithin10bp_slop50.bed.gz
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GRCh37_HG001_PacBio_MetaSV.bed.gz
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GRCh37_HG003_GIABv3.3.2_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG003_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh37_AllTandemRepeats_gt10000bp_slop5.bed.gz
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GRCh37_AllTandemRepeats_gt100bp_slop5.bed.gz
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GRCh37_gt5segdups_gt10kb_gt99percidentity.bed.gz
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GRCh37_HG001_RTG_37.7.3_comphetindel10bp_slop50.bed.gz
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GRCh37_HG003_GIABv3.3.2_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh37_HG003_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh37_AllTandemRepeats_lt51bp_slop5.bed.gz
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GRCh37_AllTandemRepeatsandHomopolymers_slop5.bed.gz
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GRCh37_notinchainSelf.bed.gz
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GRCh37_notinchainSelf_gt10kb.bed.gz
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GRCh37_HG001_RTG_37.7.3_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG001_RTG_37.7.3_complexindel10bp_slop50.bed.gz
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GRCh37_HG004_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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GRCh37_SimpleRepeat_diTR_11to50_slop5.bed.gz
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GRCh37_SimpleRepeat_diTR_51to200_slop5.bed.gz
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GRCh37_notinsegdups.bed.gz
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GRCh37_notinsegdups_gt10kb.bed.gz
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GRCh37_HG001_RTG_37.7.3_snpswithin10bp_slop50.bed.gz
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GRCh37_HG002_GIABv3.2.2_compoundhet_slop50.bed.gz
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GRCh37_HG002_GIABv3.2.2_varswithin50bp.bed.gz
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GRCh37_HG002_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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GRCh37_HG002_GIABv3.3.2_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG004_GIABv3.3.2_comphetsnp10bp_slop50.bed.gz
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GRCh37_HG004_GIABv3.3.2_complexandSVs.bed.gz
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GRCh37_SimpleRepeat_diTR_gt200_slop5.bed.gz
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GRCh37_SimpleRepeat_homopolymer_4to6_slop5.bed.gz
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GRCh37_SimpleRepeat_homopolymer_7to11_slop5.bed.gz
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GRCh37_SimpleRepeat_homopolymer_gt11_slop5.bed.gz
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GRCh37_segdups.bed.gz
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GRCh37_nonunique_l100_m2_e1.bed.gz
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GRCh37_nonunique_l250_m0_e0.bed.gz
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GRCh37_notinlowmappabilityall.bed.gz
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GRCh38_gc75to80_slop50.bed.gz
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GRCh38_gc80to85_slop50.bed.gz
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GRCh38_gc85_slop50.bed.gz
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v2.0-GRCh37-mappability-README.txt
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v2.0-GRCh38-FunctionalTechDifficult-README.txt
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GRCh38_gc15to20_slop50.bed.gz
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GRCh38_gc20to25_slop50.bed.gz
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GRCh38_gc25to30_slop50.bed.gz
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GRCh37_notinalllowmapandsegdupregions.bed.gz
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GRCh37_alldifficultregions.bed.gz
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GRCh37_alllowmapandsegdupregions.bed.gz
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GRCh37_notinalldifficultregions.bed.gz
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v2.0-GRCh37-Union-README.txt
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GRCh38_BadPromoters.bed.gz
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GRCh38_gc15_slop50.bed.gz
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GRCh38_gc30to55_slop50.bed.gz
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GRCh38_gc55to60_slop50.bed.gz
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GRCh38_gc60to65_slop50.bed.gz
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GRCh38_gc65to70_slop50.bed.gz
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GRCh38_gc70to75_slop50.bed.gz
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v2.0-GRCh37-stratification-md5-checksums.txt
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v2.0-GRCh37-stratifications.tsv
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GRCh38_notinrefseq_cds.bed.gz
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GRCh38_refseq_cds.bed.gz
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create_GRCh38_cds_bed.Rmd
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create_GRCh38_cds_bed.pdf
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v2.0-GRCh38-FunctionalRegions-README.txt
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GRCh38_segdups_gt10kb.bed.gz
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v2.0-GRCh38-LowComplexity-README.txt
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GRCh38_L1H_gt500.bed.gz
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GRCh38_MHC.bed.gz
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GRCh38_VDJ.bed.gz
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GRCh38_gclt25orgt65_slop50.bed.gz
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GRCh38_gclt30orgt55_slop50.bed.gz
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GRCh38_HG002_GIABv4.1_CNV_CCSandONT_elliptical_outlier.bed.gz
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GRCh38_HG002_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh38_HG002_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh38_HG002_GIABv3.3.2_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh38_HG003_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh38_HG004_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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GRCh38_HG004_GIABv3.3.2_comphetsnp10bp_slop50.bed.gz
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GRCh38_HG004_GIABv3.3.2_complexandSVs.bed.gz
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v2.0-GRCh38-GCcontent-README.txt
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GRCh38_HG002_GIABv3.3.2_complexandSVs_alldifficultregions.bed.gz
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GRCh38_HG001_GIABv3.2.2_compoundhet_slop50.bed.gz
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GRCh38_HG002_GIABv4.1_CNV_gt2assemblycontigs_ONTCanu_ONTFlye_CCSCanu.bed.gz
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GRCh38_HG002_GIABv4.1_complexandSVs.bed.gz
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GRCh38_HG004_GIABv3.3.2_complexandSVs_alldifficultregions.bed.gz
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GRCh38_HG004_GIABv3.3.2_complexindel10bp_slop50.bed.gz
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GRCh38_HG004_GIABv3.3.2_notin_complexandSVs_alldifficultregions.bed.gz
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GRCh38_HG004_GIABv3.3.2_snpswithin10bp_slop50.bed.gz
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GRCh38_HG001_GIABv3.2.2_varswithin50bp.bed.gz
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GRCh38_HG001_GIABv3.3.2_RTG_PG_v3.3.2_SVs_notin_alldifficultregions.bed.gz
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GRCh38_HG001_GIABv3.3.2_RTG_PG_v3.3.2_SVs_alldifficultregions.bed.gz
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GRCh38_HG001_GIABv3.3.2_comphetindel10bp_slop50.bed.gz
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| Field | Value |
|---|---|
| accessLevel | public |
| accrualPeriodicity | irregular |
| bureauCode | {006:55} |
| catalog_@context | https://project-open-data.cio.gov/v1.1/schema/data.json |
| catalog_conformsTo | https://project-open-data.cio.gov/v1.1/schema |
| catalog_describedBy | https://project-open-data.cio.gov/v1.1/schema/catalog.json |
| identifier | ark:/88434/mds2-2190 |
| issued | 2020-07-20 |
| landingPage | https://data.nist.gov/od/id/mds2-2190 |
| language | {en} |
| license | https://www.nist.gov/open/license |
| modified | 2020-03-05 00:00:00 |
| programCode | {006:045} |
| publisher | National Institute of Standards and Technology |
| references | {https://doi.org/10.1038/s41587-019-0054-x} |
| resource-type | Dataset |
| source_datajson_identifier | true |
| source_hash | c492f7648a42e572d75bfaf7228d25b4bb98e1b3 |
| source_schema_version | 1.1 |
| theme | {"Bioscience:Genomic measurements","Health:Precision medicine"} |
| Groups |
|
| Tags |
|
| isopen | False |
| license_id | other-license-specified |
| license_title | other-license-specified |
| maintainer | Justin Zook |
| maintainer_email | justin.zook@nist.gov |
| metadata_created | 2025-11-19T16:36:47.115148 |
| metadata_modified | 2025-11-19T16:36:47.115156 |
| notes | These stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium are intended as a standard resource of BED files for use in stratifying true positive, false positive, and false negative variant calls. These v2.0 stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium are intended as a standard resource of BED files for use in stratifying true positive, false positive, and false negative variant calls. v2.0 stratifications have been deprecated and replaced by v3.0 genome-stratifications. |
| num_resources | 637 |
| num_tags | 9 |
| title | Genome In A Bottle - v2.0 Genome Stratifications (Deprecated) |