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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11451-11500 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D6_15 | map_siren | het | 81.0642 | 92.5000 | 72.1448 | 84.9096 | 259 | 21 | 259 | 100 | 93 | 93.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.9138 | 82.9573 | 84.8926 | 46.2434 | 18458 | 3792 | 18538 | 3299 | 3068 | 92.9979 | |
| rpoplin-dv42 | INDEL | I1_5 | * | * | 99.2493 | 99.0230 | 99.4767 | 57.6844 | 149192 | 1472 | 149236 | 785 | 730 | 92.9936 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1314 | 98.8438 | 97.4291 | 67.5197 | 14448 | 169 | 14060 | 371 | 345 | 92.9919 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002compoundhet | het | 77.8675 | 83.4568 | 72.9798 | 46.7026 | 338 | 67 | 578 | 214 | 199 | 92.9907 | |
| rpoplin-dv42 | INDEL | * | * | * | 98.9802 | 98.7882 | 99.1728 | 78.6199 | 340367 | 4175 | 340370 | 2839 | 2640 | 92.9905 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1423 | 98.9601 | 97.3379 | 67.2353 | 14465 | 152 | 14077 | 385 | 358 | 92.9870 | |
| anovak-vg | INDEL | * | map_l150_m0_e0 | homalt | 74.0771 | 78.6585 | 70.0000 | 91.3793 | 129 | 35 | 133 | 57 | 53 | 92.9825 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 34.9475 | 95.6522 | 21.3793 | 16.5708 | 154 | 7 | 155 | 570 | 530 | 92.9825 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 80.1285 | 70.1493 | 93.4180 | 55.0363 | 423 | 180 | 809 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.3080 | 97.8404 | 94.8229 | 62.8918 | 1042 | 23 | 1044 | 57 | 53 | 92.9825 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3763 | 84.5113 | 60.2922 | 79.7798 | 562 | 103 | 454 | 299 | 278 | 92.9766 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 62.4926 | 91.1184 | 47.5533 | 63.3312 | 831 | 81 | 826 | 911 | 847 | 92.9748 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 59.9212 | 54.8636 | 66.0058 | 31.4666 | 5189 | 4269 | 5194 | 2675 | 2487 | 92.9720 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 58.8404 | 78.7365 | 46.9711 | 49.1951 | 511 | 138 | 504 | 569 | 529 | 92.9701 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 41.1414 | 67.0732 | 29.6703 | 62.4742 | 55 | 27 | 54 | 128 | 119 | 92.9688 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.6258 | 94.3116 | 94.9422 | 66.8176 | 6350 | 383 | 6401 | 341 | 317 | 92.9619 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.7786 | 96.2480 | 97.3151 | 87.4466 | 62899 | 2452 | 62814 | 1733 | 1611 | 92.9602 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.7786 | 96.2480 | 97.3151 | 87.4466 | 62899 | 2452 | 62814 | 1733 | 1611 | 92.9602 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 78.0049 | 67.7625 | 91.8950 | 70.9693 | 1278 | 608 | 1610 | 142 | 132 | 92.9577 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 46.3373 | 71.5686 | 34.2593 | 33.5385 | 73 | 29 | 74 | 142 | 132 | 92.9577 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 88.6180 | 82.8379 | 95.2651 | 48.0962 | 3205 | 664 | 2857 | 142 | 132 | 92.9577 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 41.1142 | 35.4136 | 49.0020 | 38.2625 | 976 | 1780 | 982 | 1022 | 950 | 92.9550 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 86.6959 | 90.9333 | 82.8358 | 66.4682 | 2728 | 272 | 3219 | 667 | 620 | 92.9535 | |
| rpoplin-dv42 | INDEL | D16_PLUS | * | * | 94.4399 | 93.5879 | 95.3076 | 64.2354 | 6349 | 435 | 6337 | 312 | 290 | 92.9487 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.5901 | 79.0706 | 65.4026 | 31.3787 | 2161 | 572 | 5036 | 2664 | 2476 | 92.9429 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1771 | 97.9914 | 98.3635 | 52.4340 | 35857 | 735 | 35764 | 595 | 553 | 92.9412 | |
| rpoplin-dv42 | INDEL | * | * | het | 99.0459 | 99.3340 | 98.7595 | 59.2937 | 192840 | 1293 | 192749 | 2421 | 2250 | 92.9368 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 45.9790 | 97.3958 | 30.0926 | 23.2227 | 187 | 5 | 195 | 453 | 421 | 92.9360 | |
| rpoplin-dv42 | INDEL | I1_5 | * | het | 99.3402 | 99.5015 | 99.1794 | 60.2585 | 78647 | 394 | 78679 | 651 | 605 | 92.9339 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.5254 | 97.4649 | 95.6039 | 64.9385 | 2153 | 56 | 2153 | 99 | 92 | 92.9293 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.0829 | 93.1978 | 97.0458 | 62.0799 | 3713 | 271 | 3712 | 113 | 105 | 92.9204 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.1374 | 97.6583 | 98.6213 | 37.9185 | 2669 | 64 | 8083 | 113 | 105 | 92.9204 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 46.8164 | 79.8780 | 33.1115 | 59.9867 | 393 | 99 | 398 | 804 | 747 | 92.9104 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.6952 | 95.8752 | 97.5293 | 67.9232 | 17084 | 735 | 16698 | 423 | 393 | 92.9078 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.9804 | 93.5841 | 96.4190 | 67.2497 | 45174 | 3097 | 79672 | 2959 | 2749 | 92.9030 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 26.6407 | 17.5625 | 55.1471 | 66.3088 | 232 | 1089 | 225 | 183 | 170 | 92.8962 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 68.1961 | 80.6452 | 59.0765 | 60.9919 | 950 | 228 | 934 | 647 | 601 | 92.8903 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.4868 | 81.5589 | 85.5080 | 68.6930 | 3317 | 750 | 3316 | 562 | 522 | 92.8826 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.7435 | 96.0727 | 97.4237 | 57.9207 | 16977 | 694 | 16979 | 449 | 417 | 92.8731 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.7435 | 96.0727 | 97.4237 | 57.9207 | 16977 | 694 | 16979 | 449 | 417 | 92.8731 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6448 | 97.1963 | 98.0976 | 61.8032 | 42120 | 1215 | 41922 | 813 | 755 | 92.8659 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e1 | homalt | 60.4772 | 53.3382 | 69.8227 | 60.3864 | 2205 | 1929 | 2205 | 953 | 885 | 92.8646 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 36.4192 | 29.7932 | 46.8354 | 63.9946 | 634 | 1494 | 629 | 714 | 663 | 92.8571 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 50.4202 | 43.4783 | 60.0000 | 40.6780 | 20 | 26 | 21 | 14 | 13 | 92.8571 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9204 | 99.9646 | 99.8762 | 56.3829 | 11292 | 4 | 11292 | 14 | 13 | 92.8571 | |