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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3201-3250 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | tv | map_l100_m1_e0 | * | 97.8612 | 98.9756 | 96.7717 | 72.1277 | 24250 | 251 | 24251 | 809 | 135 | 16.6873 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.1322 | 86.5088 | 94.0725 | 74.1670 | 24187 | 3772 | 24250 | 1528 | 165 | 10.7984 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 84.7824 | 84.1112 | 85.4645 | 89.6399 | 24150 | 4562 | 24242 | 4123 | 282 | 6.8397 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 84.7824 | 84.1112 | 85.4645 | 89.6399 | 24150 | 4562 | 24242 | 4123 | 282 | 6.8397 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | het | 88.6934 | 81.7679 | 96.9006 | 87.2177 | 24236 | 5404 | 24230 | 775 | 56 | 7.2258 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | het | 88.5956 | 81.7375 | 96.7099 | 87.4772 | 24227 | 5413 | 24221 | 824 | 52 | 6.3107 | |
| ghariani-varprowl | SNP | * | HG002compoundhet | * | 85.5640 | 92.8588 | 79.3318 | 55.0838 | 23978 | 1844 | 24220 | 6310 | 2033 | 32.2187 | |
| ndellapenna-hhga | SNP | tv | map_l100_m1_e0 | * | 99.2885 | 98.8123 | 99.7692 | 62.3765 | 24210 | 291 | 24210 | 56 | 24 | 42.8571 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m1_e0 | * | 99.2885 | 98.8286 | 99.7528 | 57.2287 | 24214 | 287 | 24208 | 60 | 9 | 15.0000 | |
| gduggal-snapvard | SNP | tv | map_l100_m2_e0 | * | 94.5205 | 97.0079 | 92.1574 | 76.1726 | 24284 | 749 | 24195 | 2059 | 151 | 7.3337 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.4108 | 95.2812 | 97.5675 | 40.2387 | 23382 | 1158 | 24186 | 603 | 555 | 92.0398 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.9784 | 98.5004 | 99.4611 | 39.0941 | 24172 | 368 | 24179 | 131 | 123 | 93.8931 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.8065 | 98.5086 | 99.1063 | 41.3831 | 24174 | 366 | 24176 | 218 | 209 | 95.8716 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| gduggal-bwaplat | SNP | tv | map_siren | het | 91.2244 | 84.4245 | 99.2157 | 78.7828 | 24153 | 4456 | 24161 | 191 | 46 | 24.0838 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.7654 | 98.4474 | 99.0855 | 41.1980 | 24159 | 381 | 24161 | 223 | 213 | 95.5157 | |
| dgrover-gatk | INDEL | I6_15 | * | * | 97.9082 | 97.2888 | 98.5355 | 53.2809 | 24150 | 673 | 24155 | 359 | 329 | 91.6435 | |
| gduggal-bwaplat | INDEL | * | HG002complexvar | homalt | 93.8564 | 89.6215 | 98.5114 | 56.9159 | 24222 | 2805 | 24155 | 365 | 314 | 86.0274 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | * | 99.1748 | 98.6001 | 99.7563 | 54.0248 | 24158 | 343 | 24152 | 59 | 5 | 8.4746 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e1 | het | 87.2661 | 77.9360 | 99.1339 | 83.6711 | 24129 | 6831 | 24151 | 211 | 63 | 29.8578 | |
| qzeng-custom | SNP | ti | map_l100_m2_e0 | het | 87.5433 | 79.2078 | 97.8395 | 80.9563 | 24255 | 6367 | 24137 | 533 | 415 | 77.8612 | |
| astatham-gatk | INDEL | I6_15 | * | * | 97.8089 | 97.1035 | 98.5247 | 52.8353 | 24104 | 719 | 24109 | 361 | 337 | 93.3518 | |
| gduggal-snapvard | INDEL | * | HG002compoundhet | het | 60.5436 | 68.6950 | 54.1215 | 56.4812 | 2811 | 1281 | 24103 | 20432 | 15973 | 78.1764 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | het | 83.2254 | 78.7865 | 88.1944 | 75.0570 | 24126 | 6496 | 24100 | 3226 | 86 | 2.6658 | |
| ciseli-custom | SNP | * | map_l100_m1_e0 | homalt | 90.3629 | 89.6308 | 91.1071 | 60.1980 | 24203 | 2800 | 24096 | 2352 | 1848 | 78.5714 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6306 | 98.1744 | 99.0911 | 41.2071 | 24092 | 448 | 24094 | 221 | 211 | 95.4751 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5115 | 98.1663 | 98.8593 | 41.0712 | 24090 | 450 | 24092 | 278 | 270 | 97.1223 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6077 | 98.1214 | 99.0988 | 41.2220 | 24079 | 461 | 24081 | 219 | 210 | 95.8904 | |
| jli-custom | INDEL | I6_15 | * | * | 97.9633 | 96.9786 | 98.9683 | 47.9648 | 24073 | 750 | 24077 | 251 | 222 | 88.4462 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4677 | 98.0807 | 98.8578 | 41.0102 | 24069 | 471 | 24060 | 278 | 268 | 96.4029 | |
| hfeng-pmm2 | INDEL | I6_15 | * | * | 97.8481 | 96.8980 | 98.8171 | 51.0141 | 24053 | 770 | 24058 | 288 | 265 | 92.0139 | |
| jpowers-varprowl | SNP | * | HG002compoundhet | * | 90.5976 | 92.3941 | 88.8696 | 48.7204 | 23858 | 1964 | 24057 | 3013 | 2048 | 67.9721 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2676 | 97.9992 | 98.5375 | 41.6126 | 24049 | 491 | 24053 | 357 | 339 | 94.9580 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.3676 | 96.1079 | 96.6286 | 54.1432 | 24372 | 987 | 24047 | 839 | 436 | 51.9666 | |
| ckim-vqsr | SNP | ti | map_siren | homalt | 77.6182 | 63.4297 | 99.9834 | 60.5065 | 24050 | 13866 | 24044 | 4 | 4 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | * | * | 97.6383 | 96.8416 | 98.4482 | 52.9059 | 24039 | 784 | 24044 | 379 | 335 | 88.3905 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4981 | 97.9421 | 99.0604 | 41.3577 | 24035 | 505 | 24037 | 228 | 220 | 96.4912 | |
| hfeng-pmm1 | INDEL | I6_15 | * | * | 97.8503 | 96.8134 | 98.9096 | 50.1395 | 24032 | 791 | 24037 | 265 | 246 | 92.8302 | |
| hfeng-pmm3 | INDEL | I6_15 | * | * | 97.8954 | 96.7812 | 99.0356 | 49.5509 | 24024 | 799 | 24029 | 234 | 222 | 94.8718 | |
| ckim-vqsr | INDEL | I6_15 | * | * | 97.6524 | 96.7691 | 98.5520 | 52.9508 | 24021 | 802 | 24026 | 353 | 331 | 93.7677 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.4069 | 93.3537 | 95.4842 | 40.6110 | 22909 | 1631 | 24020 | 1136 | 871 | 76.6725 | |
| dgrover-gatk | INDEL | * | * | hetalt | 96.9073 | 94.2584 | 99.7094 | 58.4640 | 23788 | 1449 | 24018 | 70 | 68 | 97.1429 | |
| gduggal-snapfb | SNP | tv | map_l100_m1_e0 | * | 97.5300 | 97.9838 | 97.0805 | 69.8683 | 24007 | 494 | 24008 | 722 | 232 | 32.1330 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.7692 | 97.9625 | 99.5893 | 34.5018 | 24040 | 500 | 24005 | 99 | 66 | 66.6667 | |
| cchapple-custom | SNP | tv | map_l100_m1_e0 | * | 97.1628 | 97.8613 | 96.4743 | 69.7586 | 23977 | 524 | 23970 | 876 | 133 | 15.1826 | |
| jmaeng-gatk | INDEL | I6_15 | * | * | 97.3971 | 96.5435 | 98.2659 | 53.3907 | 23965 | 858 | 23970 | 423 | 364 | 86.0520 | |
| astatham-gatk | INDEL | * | * | hetalt | 96.8001 | 94.0563 | 99.7088 | 58.1664 | 23737 | 1500 | 23968 | 70 | 69 | 98.5714 | |
| hfeng-pmm1 | INDEL | * | * | hetalt | 96.9096 | 94.0524 | 99.9458 | 58.8135 | 23736 | 1501 | 23960 | 13 | 12 | 92.3077 | |
| gduggal-bwavard | INDEL | * | HG002complexvar | homalt | 95.0919 | 90.9942 | 99.5761 | 40.5691 | 24593 | 2434 | 23958 | 102 | 66 | 64.7059 | |