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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80951-81000 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0283 | 99.8745 | 98.1963 | 46.0818 | 10344 | 13 | 10344 | 190 | 184 | 96.8421 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9293 | 97.2651 | 98.6025 | 47.2860 | 13408 | 377 | 13406 | 190 | 185 | 97.3684 | |
| ltrigg-rtg1 | INDEL | * | * | homalt | 99.6060 | 99.3824 | 99.8305 | 54.1259 | 124398 | 773 | 124268 | 211 | 185 | 87.6777 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 77.4124 | 95.3132 | 65.1724 | 81.3112 | 6345 | 312 | 6426 | 3434 | 185 | 5.3873 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8606 | 97.3459 | 98.3807 | 45.3197 | 4328 | 118 | 12333 | 203 | 185 | 91.1330 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 21.2269 | 13.6601 | 47.5862 | 87.4784 | 209 | 1321 | 207 | 228 | 185 | 81.1404 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 21.2269 | 13.6601 | 47.5862 | 87.4784 | 209 | 1321 | 207 | 228 | 185 | 81.1404 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e1 | * | 94.6649 | 94.5286 | 94.8016 | 89.9551 | 7550 | 437 | 7550 | 414 | 185 | 44.6860 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e0 | * | 98.5956 | 99.0053 | 98.1892 | 70.8668 | 48474 | 487 | 48476 | 894 | 185 | 20.6935 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002compoundhet | het | 78.4773 | 78.8551 | 78.1030 | 69.3467 | 675 | 181 | 667 | 187 | 185 | 98.9305 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.0613 | 59.9713 | 68.7500 | 40.2750 | 418 | 279 | 418 | 190 | 185 | 97.3684 | |
| egarrison-hhga | INDEL | I1_5 | * | het | 99.4365 | 99.3775 | 99.4956 | 58.7039 | 78549 | 492 | 78511 | 398 | 185 | 46.4824 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | * | 85.3013 | 78.7759 | 93.0054 | 76.3252 | 2780 | 749 | 2779 | 209 | 185 | 88.5167 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 66.5108 | 70.3401 | 63.0769 | 51.2012 | 517 | 218 | 615 | 360 | 185 | 51.3889 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.3444 | 86.0491 | 88.6792 | 69.8967 | 1542 | 250 | 1551 | 198 | 185 | 93.4343 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002compoundhet | het | 89.1342 | 98.1308 | 81.6487 | 68.8379 | 840 | 16 | 832 | 187 | 185 | 98.9305 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.6937 | 90.7254 | 96.8627 | 52.3369 | 1976 | 202 | 6638 | 215 | 185 | 86.0465 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 33.7398 | 28.1768 | 42.0398 | 49.5609 | 102 | 260 | 169 | 233 | 185 | 79.3991 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002compoundhet | homalt | 20.4255 | 100.0000 | 11.3744 | 65.9677 | 24 | 0 | 24 | 187 | 186 | 99.4652 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 47.4248 | 37.3206 | 65.0316 | 30.6257 | 156 | 262 | 411 | 221 | 186 | 84.1629 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8291 | 99.8805 | 97.7996 | 55.4001 | 8356 | 10 | 8356 | 188 | 186 | 98.9362 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e1 | * | 98.6004 | 99.0118 | 98.1924 | 70.8832 | 48996 | 489 | 48998 | 902 | 186 | 20.6208 | |
| ciseli-custom | INDEL | D16_PLUS | HG002compoundhet | het | 17.8807 | 11.8519 | 36.3934 | 44.8463 | 48 | 357 | 111 | 194 | 186 | 95.8763 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8233 | 99.8805 | 97.7882 | 55.5665 | 8356 | 10 | 8356 | 189 | 186 | 98.4127 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e0 | het | 90.0912 | 98.0928 | 83.2966 | 90.0573 | 2263 | 44 | 2269 | 455 | 186 | 40.8791 | |
| gduggal-bwavard | SNP | ti | * | homalt | 99.5201 | 99.0724 | 99.9718 | 15.7269 | 795590 | 7449 | 791466 | 223 | 186 | 83.4081 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.3046 | 77.4770 | 97.4025 | 63.5175 | 8586 | 2496 | 8587 | 229 | 186 | 81.2227 | |
| gduggal-bwaplat | SNP | * | HG002complexvar | homalt | 98.2316 | 96.5943 | 99.9253 | 21.0137 | 278746 | 9828 | 278424 | 208 | 186 | 89.4231 | |
| jpowers-varprowl | SNP | tv | map_siren | * | 98.2043 | 98.2321 | 98.1765 | 64.5026 | 45118 | 812 | 45118 | 838 | 186 | 22.1957 | |
| jli-custom | INDEL | D6_15 | HG002compoundhet | * | 96.8618 | 95.8809 | 97.8630 | 33.8766 | 8659 | 372 | 8655 | 189 | 186 | 98.4127 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0152 | 97.3690 | 98.6701 | 49.3437 | 14396 | 389 | 14394 | 194 | 186 | 95.8763 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 89.7651 | 91.4894 | 88.1046 | 61.3701 | 2021 | 188 | 2022 | 273 | 186 | 68.1319 | |
| qzeng-custom | INDEL | I16_PLUS | * | homalt | 86.1427 | 93.0814 | 80.1667 | 65.0757 | 1453 | 108 | 1443 | 357 | 186 | 52.1008 | |
| ndellapenna-hhga | INDEL | I1_5 | * | homalt | 99.4589 | 99.3199 | 99.5983 | 51.5644 | 60017 | 411 | 60008 | 242 | 186 | 76.8595 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.8325 | 89.0303 | 94.8168 | 50.9778 | 3498 | 431 | 3494 | 191 | 186 | 97.3822 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4647 | 97.8852 | 89.4261 | 56.5157 | 1620 | 35 | 1683 | 199 | 186 | 93.4673 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8173 | 99.8685 | 97.7879 | 55.5694 | 8355 | 11 | 8355 | 189 | 186 | 98.4127 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.1945 | 93.5761 | 98.9636 | 58.8872 | 25900 | 1778 | 26068 | 273 | 187 | 68.4982 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e1 | * | 94.4339 | 93.4771 | 95.4104 | 92.6391 | 3511 | 245 | 5010 | 241 | 187 | 77.5934 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | * | 77.4674 | 68.9900 | 88.3200 | 51.9231 | 3306 | 1486 | 3312 | 438 | 187 | 42.6941 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.3163 | 93.0341 | 95.6344 | 40.1307 | 3793 | 284 | 4206 | 192 | 187 | 97.3958 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m1_e0 | * | 58.9106 | 52.7711 | 66.6667 | 88.0351 | 438 | 392 | 436 | 218 | 187 | 85.7798 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7706 | 98.9737 | 96.5965 | 71.2228 | 5786 | 60 | 5733 | 202 | 187 | 92.5743 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8869 | 99.6041 | 98.1799 | 38.4191 | 10316 | 41 | 10303 | 191 | 187 | 97.9058 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7706 | 98.9737 | 96.5965 | 71.2228 | 5786 | 60 | 5733 | 202 | 187 | 92.5743 | |
| gduggal-snapvard | SNP | ti | map_l150_m1_e0 | * | 92.4318 | 96.0278 | 89.0953 | 81.2252 | 18929 | 783 | 18751 | 2295 | 187 | 8.1482 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 79.9070 | 76.3413 | 83.8220 | 85.1082 | 7399 | 2293 | 7461 | 1440 | 187 | 12.9861 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0454 | 96.7804 | 99.3438 | 49.5652 | 30962 | 1030 | 30885 | 204 | 187 | 91.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | * | * | 99.5494 | 99.2672 | 99.8332 | 56.8186 | 149560 | 1104 | 149606 | 250 | 187 | 74.8000 | |
| hfeng-pmm3 | INDEL | I6_15 | HG002compoundhet | homalt | 24.8000 | 100.0000 | 14.1553 | 62.6280 | 31 | 0 | 31 | 188 | 187 | 99.4681 | |