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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75051-75100 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.4217 | 95.9190 | 98.9723 | 59.1578 | 6064 | 258 | 6067 | 63 | 48 | 76.1905 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.4217 | 95.9190 | 98.9723 | 59.1578 | 6064 | 258 | 6067 | 63 | 48 | 76.1905 | |
| ltrigg-rtg1 | SNP | ti | HG002compoundhet | het | 98.5032 | 97.2856 | 99.7516 | 37.6347 | 9247 | 258 | 9237 | 23 | 5 | 21.7391 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9856 | 97.6629 | 98.3105 | 52.2428 | 10823 | 259 | 10823 | 186 | 181 | 97.3118 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.9151 | 90.2558 | 95.7358 | 51.6673 | 2399 | 259 | 29209 | 1301 | 1194 | 91.7756 | |
| gduggal-snapplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 259 | 0 | 0 | 0 | |||
| gduggal-snapplat | SNP | * | segdup | het | 98.6817 | 98.5044 | 98.8598 | 94.8279 | 17058 | 259 | 17080 | 197 | 17 | 8.6294 | |
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 259 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 43.4297 | 28.6501 | 89.7059 | 44.7154 | 104 | 259 | 61 | 7 | 7 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3592 | 95.2372 | 99.5780 | 26.4946 | 5179 | 259 | 5191 | 22 | 22 | 100.0000 | |
| ckim-dragen | SNP | * | map_l150_m1_e0 | het | 97.4659 | 98.6591 | 96.3012 | 80.3004 | 19057 | 259 | 19058 | 732 | 68 | 9.2896 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9719 | 99.1684 | 98.7761 | 70.4653 | 30884 | 259 | 31073 | 385 | 49 | 12.7273 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9719 | 99.1684 | 98.7761 | 70.4653 | 30884 | 259 | 31073 | 385 | 49 | 12.7273 | |
| ckim-dragen | SNP | ti | map_l125_m1_e0 | * | 98.4145 | 99.1171 | 97.7219 | 72.4285 | 29076 | 259 | 29083 | 678 | 79 | 11.6519 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.9827 | 89.0533 | 99.4898 | 29.9773 | 2107 | 259 | 2145 | 11 | 11 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 53.4223 | 89.0717 | 38.1524 | 44.9605 | 2111 | 259 | 2098 | 3401 | 3202 | 94.1488 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 58.4054 | 52.3020 | 66.1215 | 87.8959 | 284 | 259 | 283 | 145 | 118 | 81.3793 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 64.0121 | 47.2505 | 99.2032 | 31.2329 | 232 | 259 | 249 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.7098 | 95.5696 | 97.8776 | 67.1394 | 5587 | 259 | 5534 | 120 | 110 | 91.6667 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.7098 | 95.5696 | 97.8776 | 67.1394 | 5587 | 259 | 5534 | 120 | 110 | 91.6667 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8464 | 98.6772 | 97.0296 | 69.0281 | 19320 | 259 | 19501 | 597 | 25 | 4.1876 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8464 | 98.6772 | 97.0296 | 69.0281 | 19320 | 259 | 19501 | 597 | 25 | 4.1876 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m1_e0 | het | 97.9852 | 96.2712 | 99.7612 | 57.9109 | 6687 | 259 | 6685 | 16 | 1 | 6.2500 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1160 | 95.4815 | 98.8074 | 51.9618 | 5473 | 259 | 5468 | 66 | 42 | 63.6364 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3994 | 95.4409 | 95.3578 | 49.7393 | 5422 | 259 | 5423 | 264 | 128 | 48.4848 | |
| gduggal-bwavard | INDEL | * | segdup | * | 89.7413 | 89.8670 | 89.6160 | 95.3552 | 2297 | 259 | 2287 | 265 | 217 | 81.8868 | |
| dgrover-gatk | SNP | ti | map_l100_m2_e1 | * | 99.5279 | 99.4766 | 99.5792 | 67.5880 | 49226 | 259 | 49219 | 208 | 50 | 24.0385 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.9827 | 89.0533 | 99.4898 | 29.9773 | 2107 | 259 | 2145 | 11 | 11 | 100.0000 | |
| bgallagher-sentieon | SNP | * | * | homalt | 99.9858 | 99.9781 | 99.9936 | 17.1960 | 1179902 | 259 | 1179878 | 76 | 66 | 86.8421 | |
| rpoplin-dv42 | SNP | ti | map_l100_m1_e0 | het | 99.3390 | 99.1350 | 99.5438 | 63.8948 | 29683 | 259 | 29675 | 136 | 82 | 60.2941 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7912 | 95.8467 | 99.8163 | 67.9237 | 5977 | 259 | 5977 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.6821 | 90.4306 | 99.3530 | 87.4575 | 2457 | 260 | 2457 | 16 | 11 | 68.7500 | |
| raldana-dualsentieon | SNP | ti | map_l100_m1_e0 | het | 99.0505 | 99.1317 | 98.9695 | 65.9806 | 29682 | 260 | 29675 | 309 | 6 | 1.9418 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9932 | 98.5200 | 99.4710 | 64.4487 | 17308 | 260 | 17299 | 92 | 10 | 10.8696 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 89.5661 | 87.7820 | 91.4243 | 69.1078 | 1868 | 260 | 1855 | 174 | 164 | 94.2529 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m1_e0 | * | 55.6515 | 48.6166 | 65.0667 | 91.6126 | 246 | 260 | 244 | 131 | 111 | 84.7328 | |
| ckim-dragen | SNP | * | map_l150_m2_e0 | het | 97.5195 | 98.7086 | 96.3588 | 81.7586 | 19873 | 260 | 19874 | 751 | 69 | 9.1878 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5576 | 95.6170 | 99.5787 | 50.2750 | 5672 | 260 | 5672 | 24 | 22 | 91.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.8790 | 77.9848 | 93.1104 | 42.5160 | 921 | 260 | 919 | 68 | 68 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2054 | 98.6910 | 99.7252 | 56.8874 | 19602 | 260 | 19598 | 54 | 35 | 64.8148 | |
| anovak-vg | SNP | tv | map_l250_m1_e0 | homalt | 81.8115 | 69.6262 | 99.1667 | 88.3586 | 596 | 260 | 595 | 5 | 3 | 60.0000 | |
| 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 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 67.3433 | 50.9434 | 99.3151 | 42.0635 | 270 | 260 | 290 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | * | map_l125_m0_e0 | * | 99.2012 | 98.6588 | 99.7496 | 73.5088 | 19125 | 260 | 19125 | 48 | 23 | 47.9167 | |
| dgrover-gatk | SNP | * | map_l150_m1_e0 | * | 99.1521 | 99.1473 | 99.1569 | 77.1188 | 30348 | 261 | 30342 | 258 | 59 | 22.8682 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 45.1028 | 77.9188 | 31.7367 | 57.3110 | 921 | 261 | 921 | 1981 | 1814 | 91.5699 | |
| ciseli-custom | SNP | tv | map_l150_m0_e0 | homalt | 82.2034 | 80.3464 | 84.1483 | 77.4538 | 1067 | 261 | 1067 | 201 | 160 | 79.6020 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e0 | het | 63.7838 | 47.4849 | 97.1193 | 82.2238 | 236 | 261 | 236 | 7 | 4 | 57.1429 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m2_e0 | het | 98.0436 | 96.4010 | 99.7431 | 60.6061 | 6991 | 261 | 6989 | 18 | 1 | 5.5556 | |
| ltrigg-rtg2 | SNP | tv | map_l150_m2_e1 | het | 98.0696 | 96.4480 | 99.7466 | 60.6896 | 7087 | 261 | 7085 | 18 | 1 | 5.5556 | |