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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60551-60600 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1576 | 98.5646 | 99.7579 | 44.6381 | 412 | 6 | 412 | 1 | 0 | 0.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 44.6367 | 481 | 0 | 480 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.5213 | 93.3654 | 99.8981 | 44.6324 | 2913 | 207 | 2942 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.8007 | 99.6434 | 96.0249 | 44.6210 | 2794 | 10 | 2778 | 115 | 115 | 100.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9282 | 99.9202 | 99.9362 | 44.6182 | 6263 | 5 | 6263 | 4 | 3 | 75.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.6129 | 85.5422 | 98.6111 | 44.6154 | 71 | 12 | 71 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | * | tech_badpromoters | het | 93.3333 | 89.7436 | 97.2222 | 44.6154 | 35 | 4 | 35 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7080 | 99.4792 | 97.9487 | 44.6023 | 191 | 1 | 191 | 4 | 3 | 75.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 47.8252 | 42.6757 | 54.3879 | 44.5978 | 504 | 677 | 502 | 421 | 421 | 100.0000 | |
| eyeh-varpipe | SNP | ti | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 44.5946 | 41 | 0 | 41 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | tech_badpromoters | het | 97.5000 | 100.0000 | 95.1220 | 44.5946 | 39 | 0 | 39 | 2 | 0 | 0.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6158 | 99.2821 | 99.9518 | 44.5938 | 6223 | 45 | 6223 | 3 | 2 | 66.6667 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.9998 | 98.8848 | 99.1150 | 44.5935 | 2128 | 24 | 2128 | 19 | 14 | 73.6842 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7262 | 94.6148 | 98.9340 | 44.5934 | 2407 | 137 | 2413 | 26 | 2 | 7.6923 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1675 | 99.9091 | 98.4368 | 44.5929 | 2199 | 2 | 2204 | 35 | 13 | 37.1429 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 76.1858 | 63.3364 | 95.5758 | 44.5914 | 1363 | 789 | 1361 | 63 | 54 | 85.7143 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 91.3669 | 84.1060 | 100.0000 | 44.5887 | 127 | 24 | 128 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.8877 | 86.3510 | 79.6915 | 44.5869 | 310 | 49 | 310 | 79 | 52 | 65.8228 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.5921 | 77.7149 | 97.7589 | 44.5846 | 5632 | 1615 | 5627 | 129 | 105 | 81.3953 | |
| rpoplin-dv42 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9282 | 99.9043 | 99.9521 | 44.5722 | 6262 | 6 | 6262 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.1183 | 98.3683 | 99.8798 | 44.5703 | 844 | 14 | 831 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 86.2959 | 82.2171 | 90.8006 | 44.5699 | 3204 | 693 | 7531 | 763 | 673 | 88.2045 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6015 | 99.7463 | 97.4826 | 44.5639 | 11404 | 29 | 11462 | 296 | 9 | 3.0405 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 51.7623 | 87.4465 | 36.7612 | 44.5578 | 2452 | 352 | 2438 | 4194 | 3961 | 94.4444 | |
| anovak-vg | INDEL | * | tech_badpromoters | * | 66.4036 | 56.5789 | 80.3571 | 44.5545 | 43 | 33 | 45 | 11 | 10 | 90.9091 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6854 | 99.4272 | 99.9450 | 44.5461 | 3645 | 21 | 3633 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 87.3498 | 78.5324 | 98.3974 | 44.5432 | 1295 | 354 | 1535 | 25 | 23 | 92.0000 | |
| gduggal-bwavard | SNP | ti | HG002compoundhet | het | 83.9896 | 84.9027 | 83.0960 | 44.5406 | 8070 | 1435 | 9104 | 1852 | 1542 | 83.2613 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.5161 | 92.6267 | 98.5915 | 44.5312 | 201 | 16 | 210 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8275 | 99.6556 | 100.0000 | 44.5296 | 4051 | 14 | 4051 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9303 | 99.9535 | 99.9071 | 44.5246 | 2151 | 1 | 2151 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | * | homalt | 95.1427 | 90.8106 | 99.9088 | 44.5205 | 44430 | 4496 | 43826 | 40 | 27 | 67.5000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.1524 | 77.3435 | 97.2257 | 44.5184 | 8589 | 2516 | 8586 | 245 | 240 | 97.9592 | |
| asubramanian-gatk | INDEL | I1_5 | func_cds | * | 99.1720 | 99.4444 | 98.9011 | 44.5122 | 179 | 1 | 180 | 2 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 80.7339 | 69.2913 | 96.7033 | 44.5122 | 88 | 39 | 88 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.3139 | 89.5894 | 97.3615 | 44.5095 | 2160 | 251 | 2214 | 60 | 45 | 75.0000 | |
| ckim-isaac | INDEL | I1_5 | HG002complexvar | homalt | 94.8874 | 91.2478 | 98.8294 | 44.5077 | 12271 | 1177 | 12242 | 145 | 45 | 31.0345 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 79.5886 | 67.1053 | 97.7778 | 44.5067 | 255 | 125 | 484 | 11 | 8 | 72.7273 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | * | 97.4037 | 95.4115 | 99.4808 | 44.5038 | 23684 | 1139 | 23374 | 122 | 76 | 62.2951 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8406 | 95.8333 | 99.9338 | 44.4975 | 2990 | 130 | 3019 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4104 | 99.5294 | 99.2916 | 44.4954 | 846 | 4 | 841 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1585 | 95.7079 | 98.6538 | 44.4898 | 19712 | 884 | 19713 | 269 | 264 | 98.1413 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.8621 | 92.0530 | 100.0000 | 44.4867 | 139 | 12 | 146 | 0 | 0 | ||
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9914 | 97.4553 | 98.5335 | 44.4822 | 10800 | 282 | 11758 | 175 | 165 | 94.2857 | |
| eyeh-varpipe | SNP | ti | HG002compoundhet | homalt | 97.1981 | 99.5131 | 94.9883 | 44.4780 | 7358 | 36 | 2445 | 129 | 50 | 38.7597 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.7099 | 100.0000 | 95.5224 | 44.4751 | 192 | 0 | 192 | 9 | 8 | 88.8889 | |
| mlin-fermikit | SNP | * | HG002compoundhet | het | 92.5921 | 86.9234 | 99.0518 | 44.4618 | 12324 | 1854 | 12327 | 118 | 22 | 18.6441 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002compoundhet | * | 84.8012 | 75.3988 | 96.8828 | 44.4562 | 6617 | 2159 | 6620 | 213 | 132 | 61.9718 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 78.0779 | 88.6152 | 69.7802 | 44.4557 | 1907 | 245 | 1905 | 825 | 723 | 87.6364 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.9331 | 99.5790 | 85.3775 | 44.4518 | 2129 | 9 | 2137 | 366 | 4 | 1.0929 | |