PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27101-27150 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | HG002complexvar | hetalt | 99.0323 | 99.0323 | 99.0323 | 39.5712 | 307 | 3 | 307 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m0_e0 | * | 98.0810 | 98.7097 | 97.4603 | 88.9124 | 306 | 4 | 307 | 8 | 2 | 25.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.3923 | 96.8354 | 100.0000 | 72.8559 | 306 | 10 | 307 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m0_e0 | * | 98.5533 | 98.7097 | 98.3974 | 87.4598 | 306 | 4 | 307 | 5 | 2 | 40.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 81.0596 | 68.9189 | 98.3923 | 80.6832 | 306 | 138 | 306 | 5 | 1 | 20.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l150_m2_e1 | het | 97.0790 | 96.5300 | 97.6344 | 87.6527 | 306 | 11 | 454 | 11 | 5 | 45.4545 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m0_e0 | het | 96.2284 | 93.8650 | 98.7138 | 84.8956 | 306 | 20 | 307 | 4 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 96.5389 | 98.7097 | 94.4615 | 92.2711 | 306 | 4 | 307 | 18 | 2 | 11.1111 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m0_e0 | het | 96.2303 | 93.8650 | 98.7179 | 87.5050 | 306 | 20 | 308 | 4 | 0 | 0.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 16.7947 | 0.0000 | 0.0000 | 306 | 1516 | 0 | 0 | 0 | ||
| egarrison-hhga | SNP | * | HG002complexvar | hetalt | 98.7097 | 98.7097 | 98.7097 | 42.0561 | 306 | 4 | 306 | 4 | 4 | 100.0000 | |
| egarrison-hhga | SNP | tv | HG002complexvar | hetalt | 98.7097 | 98.7097 | 98.7097 | 42.0561 | 306 | 4 | 306 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.2323 | 97.7636 | 98.7055 | 34.2553 | 306 | 7 | 305 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | SNP | * | HG002complexvar | hetalt | 98.7097 | 98.7097 | 98.7097 | 40.9524 | 306 | 4 | 306 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | HG002complexvar | hetalt | 98.7097 | 98.7097 | 98.7097 | 40.9524 | 306 | 4 | 306 | 4 | 4 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 52.7742 | 65.9483 | 43.9872 | 44.8571 | 306 | 158 | 823 | 1048 | 780 | 74.4275 | |
| jli-custom | INDEL | I1_5 | map_l125_m0_e0 | * | 98.5507 | 98.7097 | 98.3923 | 87.2069 | 306 | 4 | 306 | 5 | 2 | 40.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | homalt | 91.5810 | 93.0091 | 90.1961 | 73.3184 | 306 | 23 | 322 | 35 | 34 | 97.1429 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.9633 | 96.8354 | 99.1176 | 83.2016 | 306 | 10 | 337 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | HG002complexvar | homalt | 98.8655 | 98.7055 | 99.0260 | 67.1642 | 305 | 4 | 305 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 96.6800 | 98.3871 | 95.0311 | 92.5047 | 305 | 5 | 306 | 16 | 2 | 12.5000 | |
| anovak-vg | INDEL | I1_5 | map_l100_m2_e0 | het | 48.1704 | 38.4615 | 64.4359 | 89.9093 | 305 | 488 | 337 | 186 | 31 | 16.6667 | |
| anovak-vg | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 24.9387 | 0.0000 | 0.0000 | 305 | 918 | 0 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | homalt | 97.9133 | 98.7055 | 97.1338 | 71.1927 | 305 | 4 | 305 | 9 | 9 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0728 | 96.5190 | 99.6774 | 73.3677 | 305 | 11 | 309 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0713 | 96.5190 | 99.6743 | 72.7111 | 305 | 11 | 306 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m0_e0 | * | 97.9174 | 98.3871 | 97.4522 | 88.7253 | 305 | 5 | 306 | 8 | 2 | 25.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.2287 | 96.5190 | 100.0000 | 72.9610 | 305 | 11 | 305 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 94.8813 | 98.3871 | 91.6168 | 91.9265 | 305 | 5 | 306 | 28 | 2 | 7.1429 | |
| gduggal-snapfb | INDEL | * | map_l150_m0_e0 | het | 90.4453 | 89.4428 | 91.4706 | 88.9359 | 305 | 36 | 311 | 29 | 6 | 20.6897 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.7738 | 84.9582 | 97.4441 | 50.1592 | 305 | 54 | 305 | 8 | 6 | 75.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m0_e0 | * | 98.3897 | 98.3871 | 98.3923 | 88.1388 | 305 | 5 | 306 | 5 | 1 | 20.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l150_m2_e1 | het | 97.7585 | 96.2145 | 99.3528 | 90.0483 | 305 | 12 | 307 | 2 | 1 | 50.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m2_e0 | het | 87.3970 | 98.7055 | 78.4133 | 92.5365 | 305 | 4 | 425 | 117 | 42 | 35.8974 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 58.9966 | 69.7941 | 51.0924 | 33.9623 | 305 | 132 | 304 | 291 | 291 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.4466 | 96.5190 | 98.3923 | 72.1076 | 305 | 11 | 306 | 5 | 5 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m0_e0 | * | 98.3871 | 98.3871 | 98.3871 | 88.2620 | 305 | 5 | 305 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 83.1523 | 78.6082 | 88.2540 | 57.7370 | 305 | 83 | 834 | 111 | 54 | 48.6486 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0671 | 97.7492 | 98.3871 | 62.2871 | 304 | 7 | 305 | 5 | 5 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 81.9603 | 79.1667 | 84.9582 | 78.0562 | 304 | 80 | 305 | 54 | 43 | 79.6296 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e0 | het | 93.4675 | 98.3819 | 89.0208 | 93.4867 | 304 | 5 | 300 | 37 | 13 | 35.1351 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.3933 | 76.1905 | 97.1246 | 62.8266 | 304 | 95 | 304 | 9 | 7 | 77.7778 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6679 | 92.1212 | 97.3595 | 41.8524 | 304 | 26 | 1143 | 31 | 26 | 83.8710 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e1 | * | 94.8576 | 91.2913 | 98.7138 | 93.7286 | 304 | 29 | 307 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0671 | 97.7492 | 98.3871 | 63.8273 | 304 | 7 | 305 | 5 | 5 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.6161 | 97.7492 | 82.7324 | 63.1469 | 304 | 7 | 436 | 91 | 90 | 98.9011 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 49.2182 | 39.3273 | 65.7559 | 77.6192 | 304 | 469 | 361 | 188 | 52 | 27.6596 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 93.9867 | 89.1496 | 99.3789 | 58.6118 | 304 | 37 | 320 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m0_e0 | * | 97.9066 | 98.0645 | 97.7492 | 88.9363 | 304 | 6 | 304 | 7 | 2 | 28.5714 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 76.2995 | 61.9145 | 99.3921 | 30.0000 | 304 | 187 | 327 | 2 | 2 | 100.0000 | |