PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47751-47800 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | D16_PLUS | segdup | * | 67.1246 | 62.0690 | 73.0769 | 90.0192 | 36 | 22 | 38 | 14 | 14 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 80.8511 | 90.4762 | 73.0769 | 99.9443 | 19 | 2 | 19 | 7 | 6 | 85.7143 | |
| ckim-dragen | INDEL | D16_PLUS | map_l125_m2_e1 | het | 82.6087 | 95.0000 | 73.0769 | 97.5495 | 19 | 1 | 19 | 7 | 2 | 28.5714 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | homalt | 79.7203 | 87.6923 | 73.0769 | 77.0925 | 57 | 8 | 76 | 28 | 3 | 10.7143 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.6741 | 97.8739 | 73.0725 | 38.0893 | 6537 | 142 | 6947 | 2560 | 2496 | 97.5000 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | * | 66.6908 | 61.3353 | 73.0708 | 52.3301 | 3252 | 2050 | 3229 | 1190 | 878 | 73.7815 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 79.9918 | 88.3797 | 73.0580 | 45.8556 | 540 | 71 | 1928 | 711 | 372 | 52.3207 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 82.0991 | 93.7008 | 73.0539 | 75.4412 | 119 | 8 | 122 | 45 | 44 | 97.7778 | |
| ciseli-custom | INDEL | * | map_l150_m2_e0 | * | 65.2883 | 59.0199 | 73.0465 | 93.1719 | 831 | 577 | 832 | 307 | 191 | 62.2150 | |
| gduggal-snapvard | INDEL | D6_15 | map_l150_m2_e1 | * | 72.3984 | 71.7647 | 73.0435 | 88.8023 | 61 | 24 | 84 | 31 | 20 | 64.5161 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 79.0223 | 86.0771 | 73.0363 | 71.1846 | 915 | 148 | 1590 | 587 | 460 | 78.3646 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e0 | * | 66.9120 | 61.7424 | 73.0263 | 82.9213 | 163 | 101 | 222 | 82 | 58 | 70.7317 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e0 | homalt | 64.7739 | 58.2018 | 73.0192 | 57.0520 | 3502 | 2515 | 3502 | 1294 | 1217 | 94.0495 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 47.8883 | 35.6275 | 73.0159 | 53.4483 | 88 | 159 | 138 | 51 | 50 | 98.0392 | |
| mlin-fermikit | SNP | * | map_l150_m1_e0 | homalt | 59.9718 | 50.8826 | 73.0143 | 56.6613 | 5736 | 5537 | 5736 | 2120 | 1986 | 93.6792 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 82.9234 | 95.9538 | 73.0088 | 76.1352 | 332 | 14 | 330 | 122 | 85 | 69.6721 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 83.6639 | 97.9752 | 73.0007 | 49.9045 | 8226 | 170 | 8617 | 3187 | 3103 | 97.3643 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 82.2695 | 94.2516 | 72.9904 | 73.0327 | 869 | 53 | 908 | 336 | 30 | 8.9286 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002compoundhet | het | 77.8675 | 83.4568 | 72.9798 | 46.7026 | 338 | 67 | 578 | 214 | 199 | 92.9907 | |
| mlin-fermikit | INDEL | * | map_l250_m1_e0 | homalt | 59.0164 | 49.5413 | 72.9730 | 91.3043 | 54 | 55 | 54 | 20 | 19 | 95.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 68.3544 | 64.2857 | 72.9730 | 97.1820 | 27 | 15 | 27 | 10 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 66.3233 | 60.7843 | 72.9730 | 93.0057 | 31 | 20 | 27 | 10 | 2 | 20.0000 | |
| ciseli-custom | SNP | ti | HG002compoundhet | homalt | 81.8243 | 93.1296 | 72.9667 | 35.5461 | 6886 | 508 | 6872 | 2546 | 564 | 22.1524 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e0 | homalt | 54.3759 | 43.3391 | 72.9548 | 76.3218 | 758 | 991 | 758 | 281 | 257 | 91.4591 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 82.4326 | 94.7547 | 72.9465 | 54.9486 | 1120 | 62 | 1119 | 415 | 412 | 99.2771 | |
| ciseli-custom | INDEL | * | map_l125_m2_e1 | het | 69.1293 | 65.6960 | 72.9412 | 91.6361 | 925 | 483 | 930 | 345 | 205 | 59.4203 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 83.9050 | 98.7578 | 72.9358 | 36.8116 | 159 | 2 | 159 | 59 | 59 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.2936 | 79.9879 | 72.9255 | 50.4089 | 1323 | 331 | 1371 | 509 | 198 | 38.8998 | |
| ciseli-custom | INDEL | * | map_l150_m1_e0 | * | 65.1609 | 58.8939 | 72.9205 | 92.7722 | 788 | 550 | 789 | 293 | 182 | 62.1160 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 74.0439 | 75.2066 | 72.9167 | 67.8332 | 728 | 240 | 630 | 234 | 184 | 78.6325 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002compoundhet | * | 61.2798 | 52.8513 | 72.9065 | 39.3574 | 4773 | 4258 | 4954 | 1841 | 1725 | 93.6991 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 71.7925 | 70.7207 | 72.8972 | 84.2415 | 157 | 65 | 156 | 58 | 51 | 87.9310 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 68.4211 | 64.4628 | 72.8972 | 66.9243 | 156 | 86 | 156 | 58 | 55 | 94.8276 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m1_e0 | het | 83.7248 | 98.3402 | 72.8916 | 90.7572 | 474 | 8 | 605 | 225 | 50 | 22.2222 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e1 | homalt | 54.4040 | 43.3973 | 72.8910 | 76.6541 | 769 | 1003 | 769 | 286 | 261 | 91.2587 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 71.6772 | 70.5040 | 72.8901 | 52.2851 | 4281 | 1791 | 4802 | 1786 | 1566 | 87.6820 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m2_e1 | * | 65.5947 | 59.6364 | 72.8758 | 83.1683 | 164 | 111 | 223 | 83 | 59 | 71.0843 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 75.1496 | 77.5758 | 72.8707 | 49.6025 | 256 | 74 | 231 | 86 | 83 | 96.5116 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 84.1727 | 99.6274 | 72.8688 | 27.5370 | 7220 | 27 | 7394 | 2753 | 2746 | 99.7457 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 67.7487 | 63.3008 | 72.8688 | 42.9423 | 7015 | 4067 | 6975 | 2597 | 2576 | 99.1914 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 81.0388 | 91.2786 | 72.8646 | 69.9021 | 1235 | 118 | 1254 | 467 | 416 | 89.0792 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 82.6087 | 95.3668 | 72.8614 | 66.3690 | 247 | 12 | 247 | 92 | 91 | 98.9130 | |
| anovak-vg | SNP | ti | map_l100_m1_e0 | het | 80.6718 | 90.3580 | 72.8613 | 71.8309 | 27055 | 2887 | 26845 | 9999 | 2187 | 21.8722 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 78.3315 | 84.6966 | 72.8563 | 89.5793 | 1284 | 232 | 1283 | 478 | 11 | 2.3013 | |
| mlin-fermikit | SNP | ti | map_l250_m1_e0 | homalt | 53.4856 | 42.2526 | 72.8541 | 73.1257 | 679 | 928 | 679 | 253 | 229 | 90.5138 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 79.3964 | 87.2325 | 72.8520 | 53.8546 | 2446 | 358 | 2442 | 910 | 909 | 99.8901 | |
| anovak-vg | INDEL | * | map_siren | * | 72.9885 | 73.1309 | 72.8467 | 79.6324 | 5419 | 1991 | 5489 | 2046 | 1378 | 67.3509 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 44.4700 | 32.0066 | 72.8302 | 65.6291 | 193 | 410 | 193 | 72 | 61 | 84.7222 | |
| anovak-vg | INDEL | * | map_l125_m1_e0 | het | 70.6166 | 68.5393 | 72.8236 | 88.9382 | 915 | 420 | 962 | 359 | 95 | 26.4624 | |
| gduggal-snapvard | INDEL | D6_15 | map_l150_m2_e0 | * | 72.9884 | 73.1707 | 72.8070 | 88.6680 | 60 | 22 | 83 | 31 | 20 | 64.5161 | |