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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84551-84600 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 59.9042 | 65.3860 | 55.2704 | 39.0162 | 1787 | 946 | 3015 | 2440 | 1867 | 76.5164 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | * | 95.4882 | 98.6507 | 92.5222 | 82.5036 | 30196 | 413 | 30190 | 2440 | 190 | 7.7869 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 76.2662 | 86.5448 | 68.1700 | 55.3642 | 5255 | 817 | 5230 | 2442 | 2103 | 86.1179 | |
| ghariani-varprowl | SNP | ti | HG002complexvar | het | 99.4535 | 99.6801 | 99.2280 | 19.8744 | 313754 | 1007 | 313878 | 2442 | 84 | 3.4398 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 24.1770 | 18.1983 | 36.0063 | 77.7972 | 1107 | 4976 | 1374 | 2442 | 776 | 31.7772 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 44.2331 | 96.9758 | 28.6507 | 74.2013 | 962 | 30 | 981 | 2443 | 19 | 0.7777 | |
| mlin-fermikit | SNP | ti | map_l100_m2_e0 | homalt | 75.4463 | 68.6657 | 83.7129 | 51.9470 | 12572 | 5737 | 12572 | 2446 | 2353 | 96.1979 | |
| gduggal-bwavard | SNP | ti | map_siren | * | 97.1130 | 96.7157 | 97.5137 | 63.7053 | 97059 | 3296 | 96090 | 2450 | 278 | 11.3469 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 82.6699 | 77.1496 | 89.0409 | 77.8450 | 16895 | 5004 | 19914 | 2451 | 1673 | 68.2579 | |
| ckim-gatk | SNP | tv | * | het | 99.5973 | 99.6088 | 99.5858 | 30.9441 | 589381 | 2315 | 589308 | 2451 | 61 | 2.4888 | |
| ghariani-varprowl | SNP | tv | * | homalt | 99.6533 | 99.9547 | 99.3538 | 23.4817 | 376950 | 171 | 377023 | 2452 | 1194 | 48.6949 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 54.2480 | 71.5164 | 43.6969 | 32.3548 | 349 | 139 | 1903 | 2452 | 2341 | 95.4731 | |
| eyeh-varpipe | SNP | tv | map_siren | * | 97.2803 | 99.8215 | 94.8652 | 61.8425 | 45848 | 82 | 45301 | 2452 | 30 | 1.2235 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.3676 | 44.4859 | 44.2500 | 32.4739 | 1073 | 1339 | 1947 | 2453 | 2342 | 95.4749 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.1298 | 99.3978 | 77.5574 | 83.2455 | 9078 | 55 | 8484 | 2455 | 50 | 2.0367 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.1298 | 99.3978 | 77.5574 | 83.2455 | 9078 | 55 | 8484 | 2455 | 50 | 2.0367 | |
| gduggal-snapplat | SNP | tv | HG002compoundhet | * | 81.2573 | 87.2016 | 76.0717 | 63.0432 | 7781 | 1142 | 7808 | 2456 | 275 | 11.1971 | |
| mlin-fermikit | SNP | ti | map_l100_m2_e1 | homalt | 75.6197 | 68.8710 | 83.8347 | 52.0014 | 12737 | 5757 | 12737 | 2456 | 2363 | 96.2134 | |
| gduggal-bwafb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.5779 | 93.7628 | 97.4647 | 70.7003 | 88558 | 5891 | 94531 | 2459 | 2226 | 90.5246 | |
| ciseli-custom | SNP | ti | map_siren | homalt | 93.8892 | 94.2504 | 93.5307 | 51.3255 | 35736 | 2180 | 35566 | 2460 | 1879 | 76.3821 | |
| jlack-gatk | SNP | * | map_l150_m2_e0 | het | 93.6840 | 98.8973 | 88.9927 | 86.5727 | 19911 | 222 | 19905 | 2462 | 176 | 7.1487 | |
| anovak-vg | SNP | tv | HG002compoundhet | * | 74.6577 | 75.2101 | 74.1133 | 50.0629 | 6711 | 2212 | 7063 | 2467 | 1646 | 66.7207 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.6861 | 86.5079 | 37.8773 | 88.9660 | 1526 | 238 | 1506 | 2470 | 92 | 3.7247 | |
| anovak-vg | INDEL | I1_5 | HG002compoundhet | het | 51.6510 | 42.9412 | 64.7929 | 62.2549 | 365 | 485 | 4553 | 2474 | 1995 | 80.6386 | |
| anovak-vg | SNP | ti | HG002compoundhet | het | 76.5771 | 76.2336 | 76.9238 | 40.2064 | 7246 | 2259 | 8247 | 2474 | 2044 | 82.6192 | |
| anovak-vg | INDEL | D1_5 | HG002complexvar | * | 91.1523 | 90.0107 | 92.3232 | 54.8532 | 29447 | 3268 | 29789 | 2477 | 1674 | 67.5818 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 68.2551 | 91.4186 | 54.4569 | 32.9265 | 522 | 49 | 2963 | 2478 | 2470 | 99.6772 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.1261 | 88.9650 | 87.3028 | 53.9810 | 15721 | 1950 | 17045 | 2479 | 1231 | 49.6571 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.1261 | 88.9650 | 87.3028 | 53.9810 | 15721 | 1950 | 17045 | 2479 | 1231 | 49.6571 | |
| jli-custom | SNP | * | * | het | 99.9088 | 99.9498 | 99.8677 | 18.9256 | 1872647 | 940 | 1872558 | 2480 | 145 | 5.8468 | |
| jlack-gatk | SNP | * | map_l150_m2_e0 | * | 95.5915 | 98.6908 | 92.6808 | 83.6558 | 31435 | 417 | 31429 | 2482 | 191 | 7.6954 | |
| jlack-gatk | SNP | * | map_l150_m2_e1 | het | 93.7014 | 98.9098 | 89.0141 | 86.6201 | 20141 | 222 | 20135 | 2485 | 178 | 7.1630 | |
| ckim-gatk | SNP | tv | * | * | 99.5705 | 99.3991 | 99.7425 | 27.2376 | 963863 | 5827 | 963776 | 2488 | 84 | 3.3762 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2602 | 98.2179 | 92.4754 | 79.7293 | 30588 | 555 | 30675 | 2496 | 323 | 12.9407 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2602 | 98.2179 | 92.4754 | 79.7293 | 30588 | 555 | 30675 | 2496 | 323 | 12.9407 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.7284 | 98.2608 | 80.8820 | 41.3226 | 10226 | 181 | 10564 | 2497 | 2416 | 96.7561 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | homalt | 32.9688 | 92.1283 | 20.0767 | 74.2148 | 632 | 54 | 628 | 2500 | 2465 | 98.6000 | |
| jlack-gatk | SNP | * | map_l150_m2_e1 | * | 95.6027 | 98.6992 | 92.6947 | 83.7025 | 31791 | 419 | 31785 | 2505 | 193 | 7.7046 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 88.9438 | 97.7871 | 81.5673 | 65.0094 | 11180 | 253 | 11085 | 2505 | 89 | 3.5529 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | het | 92.8051 | 97.9602 | 88.1654 | 84.8061 | 18922 | 394 | 18699 | 2510 | 124 | 4.9402 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.1375 | 89.8020 | 77.3938 | 60.0848 | 3628 | 412 | 8600 | 2512 | 1214 | 48.3280 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.4343 | 64.2857 | 44.2724 | 31.6918 | 477 | 265 | 2002 | 2520 | 2292 | 90.9524 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 42.4079 | 40.5785 | 44.4101 | 31.8353 | 1417 | 2075 | 2014 | 2521 | 2293 | 90.9560 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 60.8435 | 85.3147 | 47.2815 | 88.9072 | 2318 | 399 | 2261 | 2521 | 114 | 4.5220 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 48.2780 | 92.0474 | 32.7195 | 37.0781 | 1088 | 94 | 1226 | 2521 | 2349 | 93.1773 | |
| gduggal-bwaplat | SNP | ti | HG002compoundhet | * | 89.0817 | 91.8641 | 86.4629 | 42.2720 | 16056 | 1422 | 16121 | 2524 | 263 | 10.4200 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | het | 93.0021 | 97.9685 | 88.5150 | 85.7521 | 19724 | 409 | 19491 | 2529 | 126 | 4.9822 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | * | 94.8478 | 97.7523 | 92.1110 | 81.9172 | 29921 | 688 | 29540 | 2530 | 139 | 5.4941 | |
| jpowers-varprowl | INDEL | * | * | homalt | 92.2554 | 87.3566 | 97.7363 | 45.3284 | 109346 | 15826 | 109233 | 2530 | 2235 | 88.3399 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.3753 | 83.0063 | 69.0293 | 65.5447 | 6980 | 1429 | 5639 | 2530 | 425 | 16.7984 | |