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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50801-50850 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I6_15 | map_l125_m1_e0 | het | 85.1852 | 76.6667 | 95.8333 | 91.0448 | 23 | 7 | 23 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l125_m2_e0 | het | 85.1852 | 76.6667 | 95.8333 | 92.0000 | 23 | 7 | 23 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l125_m2_e1 | het | 85.1852 | 76.6667 | 95.8333 | 92.1824 | 23 | 7 | 23 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7495 | 97.6834 | 95.8333 | 56.5789 | 253 | 6 | 253 | 11 | 10 | 90.9091 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 95.8333 | 95.8333 | 95.8333 | 72.4138 | 23 | 1 | 23 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I1_5 | map_l250_m2_e1 | homalt | 97.8723 | 100.0000 | 95.8333 | 94.3396 | 46 | 0 | 46 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7495 | 97.6834 | 95.8333 | 57.2816 | 253 | 6 | 253 | 11 | 10 | 90.9091 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 95.8333 | 95.8333 | 95.8333 | 91.9192 | 23 | 1 | 23 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l250_m2_e1 | homalt | 97.8723 | 100.0000 | 95.8333 | 94.3128 | 46 | 0 | 46 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | segdup | het | 95.8333 | 95.8333 | 95.8333 | 97.0223 | 23 | 1 | 23 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.8723 | 100.0000 | 95.8333 | 68.4211 | 92 | 0 | 92 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | * | map_l250_m0_e0 | homalt | 93.8776 | 92.0000 | 95.8333 | 97.2603 | 23 | 2 | 23 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.8333 | 95.8333 | 95.8333 | 44.3478 | 184 | 8 | 184 | 8 | 6 | 75.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l150_m0_e0 | het | 95.4148 | 95.0000 | 95.8333 | 93.3148 | 19 | 1 | 23 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 95.8333 | 95.8333 | 95.8333 | 71.7647 | 23 | 1 | 23 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | map_l100_m2_e0 | * | 92.0000 | 88.4615 | 95.8333 | 93.6000 | 23 | 3 | 23 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | map_l100_m2_e1 | * | 92.0000 | 88.4615 | 95.8333 | 93.6675 | 23 | 3 | 23 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | map_siren | het | 94.8454 | 93.8776 | 95.8333 | 88.5442 | 46 | 3 | 46 | 2 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.8776 | 92.0000 | 95.8333 | 53.8462 | 23 | 2 | 23 | 1 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 74.6313 | 61.1111 | 95.8333 | 91.7241 | 22 | 14 | 23 | 1 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | map_l250_m0_e0 | het | 33.2370 | 20.1049 | 95.8333 | 85.2399 | 115 | 457 | 115 | 5 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6955 | 99.6275 | 95.8371 | 67.9253 | 4279 | 16 | 4282 | 186 | 9 | 4.8387 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | * | 93.5490 | 91.3672 | 95.8374 | 52.5778 | 1958 | 185 | 1957 | 85 | 85 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 94.6758 | 93.5408 | 95.8387 | 47.4428 | 1593 | 110 | 5988 | 260 | 204 | 78.4615 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m1_e0 | * | 96.0363 | 96.2343 | 95.8391 | 92.4668 | 690 | 27 | 691 | 30 | 4 | 13.3333 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 80.5324 | 69.4405 | 95.8416 | 48.3640 | 484 | 213 | 484 | 21 | 19 | 90.4762 | |
| ckim-dragen | INDEL | I1_5 | map_l125_m1_e0 | het | 95.2424 | 94.6502 | 95.8420 | 88.2223 | 460 | 26 | 461 | 20 | 3 | 15.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | het | 87.2979 | 80.1505 | 95.8449 | 75.4255 | 1385 | 343 | 1384 | 60 | 57 | 95.0000 | |
| hfeng-pmm3 | INDEL | * | map_l250_m2_e0 | * | 96.7066 | 97.5831 | 95.8457 | 95.1946 | 323 | 8 | 323 | 14 | 4 | 28.5714 | |
| egarrison-hhga | INDEL | I16_PLUS | * | het | 94.6145 | 93.4143 | 95.8459 | 68.1424 | 2539 | 179 | 2538 | 110 | 63 | 57.2727 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | * | 93.8901 | 92.0123 | 95.8462 | 36.5464 | 8075 | 701 | 8076 | 350 | 348 | 99.4286 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.3450 | 94.8485 | 95.8466 | 76.3952 | 313 | 17 | 300 | 13 | 7 | 53.8462 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.9373 | 88.3333 | 95.8478 | 79.7335 | 424 | 56 | 554 | 24 | 21 | 87.5000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.4023 | 37.0119 | 95.8478 | 69.3856 | 436 | 742 | 554 | 24 | 22 | 91.6667 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.7462 | 97.6596 | 95.8498 | 63.4393 | 459 | 11 | 485 | 21 | 18 | 85.7143 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.1958 | 90.6831 | 95.8516 | 40.5987 | 20177 | 2073 | 20125 | 871 | 757 | 86.9116 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.0365 | 96.2201 | 95.8537 | 59.0186 | 8044 | 316 | 8045 | 348 | 182 | 52.2989 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.0365 | 96.2201 | 95.8537 | 59.0186 | 8044 | 316 | 8045 | 348 | 182 | 52.2989 | |
| cchapple-custom | SNP | * | map_l100_m2_e0 | het | 96.8591 | 97.8857 | 95.8537 | 73.9797 | 45418 | 981 | 45473 | 1967 | 406 | 20.6406 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.0752 | 90.4494 | 95.8580 | 71.6918 | 161 | 17 | 162 | 7 | 6 | 85.7143 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.0318 | 94.2197 | 95.8580 | 61.6780 | 326 | 20 | 324 | 14 | 10 | 71.4286 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.4420 | 91.1431 | 95.8599 | 59.1279 | 1204 | 117 | 1204 | 52 | 39 | 75.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.5788 | 95.2991 | 95.8600 | 66.1112 | 4237 | 209 | 4191 | 181 | 178 | 98.3425 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.4291 | 95.0000 | 95.8621 | 89.7959 | 152 | 8 | 139 | 6 | 3 | 50.0000 | |
| cchapple-custom | SNP | * | map_l100_m2_e1 | het | 96.8714 | 97.9018 | 95.8624 | 74.0033 | 45914 | 984 | 45967 | 1984 | 408 | 20.5645 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e1 | het | 76.7833 | 64.0379 | 95.8629 | 77.1351 | 812 | 456 | 811 | 35 | 19 | 54.2857 | |
| egarrison-hhga | INDEL | D6_15 | * | homalt | 96.8232 | 97.8027 | 95.8630 | 51.8789 | 6187 | 139 | 6187 | 267 | 86 | 32.2097 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.2311 | 80.0232 | 95.8659 | 91.4316 | 5508 | 1375 | 5519 | 238 | 31 | 13.0252 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m1_e0 | het | 96.9291 | 98.0149 | 95.8671 | 85.7209 | 1185 | 24 | 1183 | 51 | 4 | 7.8431 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 95.1053 | 94.3548 | 95.8678 | 99.9213 | 117 | 7 | 116 | 5 | 1 | 20.0000 | |