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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63551-63600 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.0445 | 97.1326 | 98.9736 | 79.7926 | 1355 | 40 | 1350 | 14 | 2 | 14.2857 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.3982 | 97.2756 | 99.5471 | 54.5040 | 3035 | 85 | 3077 | 14 | 13 | 92.8571 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8311 | 99.7438 | 99.9184 | 52.5299 | 17133 | 44 | 17145 | 14 | 9 | 64.2857 | |
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8014 | 99.7293 | 99.8736 | 52.3918 | 11054 | 30 | 11063 | 14 | 9 | 64.2857 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m1_e0 | homalt | 64.7619 | 59.6491 | 70.8333 | 88.7324 | 34 | 23 | 34 | 14 | 14 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m2_e0 | homalt | 66.6667 | 61.6667 | 72.5490 | 90.0391 | 37 | 23 | 37 | 14 | 14 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m2_e1 | homalt | 66.6667 | 61.6667 | 72.5490 | 90.4315 | 37 | 23 | 37 | 14 | 14 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e0 | * | 67.7170 | 59.7561 | 78.1250 | 86.7769 | 49 | 33 | 50 | 14 | 10 | 71.4286 | |
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e1 | * | 68.1223 | 60.0000 | 78.7879 | 86.7735 | 51 | 34 | 52 | 14 | 10 | 71.4286 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.0318 | 94.2197 | 95.8580 | 61.6780 | 326 | 20 | 324 | 14 | 10 | 71.4286 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 81.6561 | 69.2510 | 99.4755 | 31.4587 | 2635 | 1170 | 2655 | 14 | 14 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 75.4098 | 95.8333 | 62.1622 | 79.5580 | 23 | 1 | 23 | 14 | 14 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2146 | 96.7797 | 99.6928 | 37.8817 | 4538 | 151 | 4543 | 14 | 2 | 14.2857 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0340 | 96.7727 | 99.3285 | 36.5490 | 2069 | 69 | 2071 | 14 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D16_PLUS | map_l100_m0_e0 | homalt | 34.7826 | 80.0000 | 22.2222 | 97.4755 | 4 | 1 | 4 | 14 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D16_PLUS | map_l150_m1_e0 | het | 66.4395 | 92.8571 | 51.7241 | 96.7232 | 13 | 1 | 15 | 14 | 0 | 0.0000 | |
| qzeng-custom | INDEL | D16_PLUS | map_l150_m2_e0 | het | 70.3125 | 93.7500 | 56.2500 | 96.6066 | 15 | 1 | 18 | 14 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6752 | 98.9651 | 98.3871 | 77.1459 | 765 | 8 | 854 | 14 | 3 | 21.4286 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 99.9713 | 0 | 0 | 0 | 14 | 0 | 0.0000 | ||
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.2635 | 98.1273 | 98.4000 | 38.2934 | 262 | 5 | 861 | 14 | 8 | 57.1429 | |
| qzeng-custom | INDEL | I6_15 | func_cds | het | 77.4194 | 100.0000 | 63.1579 | 33.3333 | 24 | 0 | 24 | 14 | 2 | 14.2857 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m0_e0 | * | 98.3571 | 96.8735 | 99.8869 | 59.3116 | 12363 | 399 | 12363 | 14 | 4 | 28.5714 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.3487 | 98.9909 | 99.7091 | 60.6090 | 4807 | 49 | 4798 | 14 | 2 | 14.2857 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3508 | 99.1580 | 99.5443 | 63.5414 | 3062 | 26 | 3058 | 14 | 2 | 14.2857 | |
| mlin-fermikit | INDEL | * | map_l150_m0_e0 | het | 52.0833 | 36.6569 | 89.9281 | 85.9312 | 125 | 216 | 125 | 14 | 4 | 28.5714 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l125_m1_e0 | homalt | 36.3636 | 100.0000 | 22.2222 | 94.4785 | 4 | 0 | 4 | 14 | 3 | 21.4286 | |
| mlin-fermikit | INDEL | D16_PLUS | segdup | * | 83.1087 | 87.9310 | 78.7879 | 94.7577 | 51 | 7 | 52 | 14 | 7 | 50.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1544 | 99.6124 | 94.8148 | 60.2941 | 257 | 1 | 256 | 14 | 13 | 92.8571 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m0_e0 | het | 66.7367 | 51.2690 | 95.5696 | 76.0968 | 303 | 288 | 302 | 14 | 4 | 28.5714 | |
| ndellapenna-hhga | INDEL | I16_PLUS | map_siren | * | 81.0503 | 79.0698 | 83.1325 | 85.7143 | 68 | 18 | 69 | 14 | 10 | 71.4286 | |
| ndellapenna-hhga | SNP | * | map_l125_m1_e0 | homalt | 99.7333 | 99.5504 | 99.9169 | 65.2026 | 16829 | 76 | 16829 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e0 | homalt | 99.7405 | 99.5626 | 99.9191 | 67.9668 | 17299 | 76 | 17299 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e1 | homalt | 99.7429 | 99.5665 | 99.9199 | 68.0072 | 17456 | 76 | 17456 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l250_m0_e0 | het | 96.7742 | 94.6215 | 99.0271 | 92.2359 | 1425 | 81 | 1425 | 14 | 5 | 35.7143 | |
| ndellapenna-hhga | SNP | ti | map_l250_m1_e0 | het | 97.6313 | 95.8221 | 99.5101 | 88.0937 | 2844 | 124 | 2844 | 14 | 6 | 42.8571 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e0 | het | 97.7952 | 96.0971 | 99.5543 | 88.3585 | 3127 | 127 | 3127 | 14 | 6 | 42.8571 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.9147 | 98.8772 | 98.9521 | 56.9032 | 1321 | 15 | 1322 | 14 | 5 | 35.7143 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7292 | 99.5876 | 99.8713 | 60.0265 | 10866 | 45 | 10866 | 14 | 10 | 71.4286 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2827 | 98.8697 | 99.6991 | 37.4429 | 4636 | 53 | 4639 | 14 | 4 | 28.5714 | |
| qzeng-custom | INDEL | * | map_l150_m1_e0 | homalt | 80.5851 | 69.0476 | 96.7517 | 89.5717 | 319 | 143 | 417 | 14 | 7 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6415 | 98.1210 | 99.1677 | 69.0182 | 1671 | 32 | 1668 | 14 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | het | 97.6073 | 96.1333 | 99.1272 | 75.0467 | 1616 | 65 | 1590 | 14 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | het | 98.2042 | 97.1125 | 99.3207 | 49.9393 | 2287 | 68 | 2047 | 14 | 8 | 57.1429 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.2792 | 97.5341 | 99.0358 | 68.7742 | 1503 | 38 | 1438 | 14 | 3 | 21.4286 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e0 | het | 96.6769 | 93.8198 | 99.7135 | 80.2936 | 4873 | 321 | 4873 | 14 | 4 | 28.5714 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m2_e1 | * | 97.8015 | 95.9614 | 99.7136 | 84.0906 | 4871 | 205 | 4874 | 14 | 8 | 57.1429 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5382 | 99.2871 | 99.7905 | 44.9407 | 6685 | 48 | 6668 | 14 | 4 | 28.5714 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m1_e0 | het | 97.3392 | 95.8052 | 98.9231 | 79.2399 | 1279 | 56 | 1286 | 14 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m2_e0 | het | 97.4100 | 95.9022 | 98.9660 | 80.9349 | 1334 | 57 | 1340 | 14 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | ti | map_siren | homalt | 91.9235 | 85.0855 | 99.9566 | 52.7056 | 32261 | 5655 | 32255 | 14 | 14 | 100.0000 | |