PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77101-77150 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5343 | 99.1889 | 99.8821 | 57.8109 | 856 | 7 | 847 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5343 | 99.4751 | 99.5935 | 60.5291 | 10044 | 53 | 10045 | 41 | 39 | 95.1220 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.5344 | 99.3802 | 99.6891 | 63.3219 | 962 | 6 | 962 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l100_m1_e0 | * | 99.5344 | 99.4763 | 99.5926 | 66.0277 | 47680 | 251 | 47673 | 195 | 49 | 25.1282 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5345 | 99.7661 | 99.3039 | 36.1103 | 2133 | 5 | 2140 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 80.7339 | 107 | 1 | 105 | 0 | 0 | ||
| eyeh-varpipe | SNP | tv | map_l125_m2_e0 | hetalt | 99.5349 | 100.0000 | 99.0741 | 73.5941 | 30 | 0 | 107 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 80.8044 | 107 | 1 | 105 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 80.6985 | 107 | 1 | 105 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 81.1151 | 107 | 1 | 105 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 79.9728 | 107 | 1 | 147 | 0 | 0 | ||
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5350 | 99.4806 | 99.5894 | 54.0098 | 3639 | 19 | 3638 | 15 | 5 | 33.3333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.5351 | 99.4510 | 99.6193 | 87.6224 | 2355 | 13 | 2355 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e1 | het | 99.5354 | 99.4855 | 99.5854 | 67.1367 | 15856 | 82 | 15852 | 66 | 5 | 7.5758 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5356 | 99.3048 | 99.7674 | 61.5385 | 857 | 6 | 858 | 2 | 1 | 50.0000 | |
| mlin-fermikit | SNP | * | func_cds | homalt | 99.5356 | 99.8137 | 99.2590 | 20.0683 | 6966 | 13 | 6966 | 52 | 48 | 92.3077 | |
| dgrover-gatk | SNP | ti | segdup | het | 99.5358 | 99.8337 | 99.2397 | 90.9955 | 12010 | 20 | 12008 | 92 | 3 | 3.2609 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.5359 | 99.7766 | 99.2963 | 59.3496 | 2680 | 6 | 2681 | 19 | 1 | 5.2632 | |
| gduggal-snapfb | SNP | * | func_cds | het | 99.5360 | 99.9462 | 99.1291 | 30.5670 | 11155 | 6 | 11155 | 98 | 1 | 1.0204 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.5363 | 99.2878 | 99.7860 | 56.6980 | 16312 | 117 | 16318 | 35 | 21 | 60.0000 | |
| eyeh-varpipe | SNP | ti | * | hetalt | 99.5363 | 99.8282 | 99.2460 | 38.4448 | 581 | 1 | 6450 | 49 | 47 | 95.9184 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5364 | 99.2047 | 99.8702 | 65.5442 | 16840 | 135 | 16932 | 22 | 12 | 54.5455 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5364 | 99.2047 | 99.8702 | 65.5442 | 16840 | 135 | 16932 | 22 | 12 | 54.5455 | |
| egarrison-hhga | SNP | * | map_siren | het | 99.5365 | 99.2384 | 99.8364 | 54.0342 | 90298 | 693 | 90299 | 148 | 53 | 35.8108 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5369 | 99.1334 | 99.9436 | 40.3106 | 10639 | 93 | 10639 | 6 | 1 | 16.6667 | |
| bgallagher-sentieon | SNP | * | map_l125_m0_e0 | homalt | 99.5370 | 99.2849 | 99.7904 | 67.2503 | 6664 | 48 | 6664 | 14 | 10 | 71.4286 | |
| jmaeng-gatk | SNP | tv | * | * | 99.5370 | 99.3842 | 99.6902 | 27.5023 | 963719 | 5971 | 963632 | 2995 | 80 | 2.6711 | |
| ndellapenna-hhga | SNP | * | segdup | * | 99.5371 | 99.5903 | 99.4839 | 89.2221 | 27952 | 115 | 27952 | 145 | 51 | 35.1724 | |
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | homalt | 99.5372 | 99.3119 | 99.7635 | 66.3061 | 10969 | 76 | 10969 | 26 | 25 | 96.1538 | |
| ghariani-varprowl | SNP | ti | * | * | 99.5372 | 99.8784 | 99.1982 | 22.5770 | 2082957 | 2536 | 2083186 | 16837 | 1291 | 7.6676 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5374 | 99.6524 | 99.4226 | 63.8866 | 860 | 3 | 861 | 5 | 2 | 40.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5374 | 99.6524 | 99.4226 | 64.3621 | 860 | 3 | 861 | 5 | 3 | 60.0000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.5376 | 99.8908 | 99.1870 | 59.6192 | 1829 | 2 | 1830 | 15 | 1 | 6.6667 | |
| ndellapenna-hhga | SNP | ti | map_siren | * | 99.5376 | 99.2028 | 99.8746 | 51.9628 | 99555 | 800 | 99557 | 125 | 60 | 48.0000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5376 | 99.1089 | 99.9700 | 56.4901 | 20019 | 180 | 20019 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5382 | 99.2871 | 99.7905 | 44.9407 | 6685 | 48 | 6668 | 14 | 4 | 28.5714 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5383 | 99.8148 | 99.2634 | 82.5064 | 539 | 1 | 539 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | SNP | ti | map_l100_m2_e0 | * | 99.5384 | 99.5445 | 99.5323 | 66.9341 | 48738 | 223 | 48731 | 229 | 30 | 13.1004 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5386 | 99.2998 | 99.7786 | 39.6095 | 2269 | 16 | 2253 | 5 | 1 | 20.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5392 | 100.0000 | 99.0826 | 64.4372 | 216 | 0 | 216 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 80.4869 | 540 | 0 | 540 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 80.8099 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5392 | 100.0000 | 99.0826 | 67.8940 | 216 | 0 | 216 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 81.8454 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 82.0606 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | * | func_cds | het | 99.5392 | 100.0000 | 99.0826 | 49.7696 | 214 | 0 | 216 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | * | func_cds | het | 99.5392 | 100.0000 | 99.0826 | 50.0000 | 214 | 0 | 216 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5392 | 100.0000 | 99.0826 | 67.8940 | 216 | 0 | 216 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | * | func_cds | het | 99.5392 | 100.0000 | 99.0826 | 50.3417 | 214 | 0 | 216 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5392 | 100.0000 | 99.0826 | 68.3599 | 216 | 0 | 216 | 2 | 2 | 100.0000 | |