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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
35651-35700 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 59.5875 | 61.0924 | 58.1549 | 41.9454 | 3624 | 2308 | 5623 | 4046 | 3831 | 94.6861 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 56.8514 | 55.5879 | 58.1738 | 61.2449 | 24089 | 19246 | 24394 | 17539 | 13551 | 77.2621 | |
| jpowers-varprowl | INDEL | I16_PLUS | map_siren | het | 61.5385 | 65.3061 | 58.1818 | 76.2931 | 32 | 17 | 32 | 23 | 23 | 100.0000 | |
| ciseli-custom | INDEL | C1_5 | HG002complexvar | het | 38.3292 | 28.5714 | 58.2090 | 91.1900 | 2 | 5 | 78 | 56 | 4 | 7.1429 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 69.4308 | 85.9873 | 58.2206 | 70.8929 | 810 | 132 | 818 | 587 | 575 | 97.9557 | |
| jpowers-varprowl | INDEL | I16_PLUS | * | het | 66.0542 | 76.3061 | 58.2307 | 60.8634 | 2074 | 644 | 2080 | 1492 | 1486 | 99.5979 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 66.4676 | 77.4068 | 58.2374 | 31.9666 | 5170 | 1509 | 7692 | 5516 | 4283 | 77.6468 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 55.2299 | 52.5133 | 58.2428 | 71.2539 | 1870 | 1691 | 1876 | 1345 | 1229 | 91.3755 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 57.4634 | 56.6917 | 58.2564 | 53.1385 | 754 | 576 | 1009 | 723 | 533 | 73.7206 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 68.7500 | 83.7563 | 58.3039 | 53.7582 | 165 | 32 | 165 | 118 | 105 | 88.9831 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 52.6084 | 47.9255 | 58.3056 | 39.7096 | 566 | 615 | 702 | 502 | 328 | 65.3386 | |
| qzeng-custom | INDEL | C1_5 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 58.3333 | 88.4615 | 0 | 0 | 7 | 5 | 3 | 60.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m2_e1 | het | 62.2222 | 66.6667 | 58.3333 | 92.7449 | 34 | 17 | 35 | 25 | 10 | 40.0000 | |
| jpowers-varprowl | INDEL | D1_5 | tech_badpromoters | het | 70.0000 | 87.5000 | 58.3333 | 47.8261 | 7 | 1 | 7 | 5 | 5 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 51.8519 | 46.6667 | 58.3333 | 90.9091 | 7 | 8 | 7 | 5 | 5 | 100.0000 | |
| gduggal-bwavard | INDEL | C6_15 | map_l100_m2_e0 | * | 0.0000 | 0.0000 | 58.3333 | 96.3526 | 0 | 0 | 7 | 5 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | C6_15 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 58.3333 | 96.4706 | 0 | 0 | 7 | 5 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l150_m0_e0 | * | 73.6842 | 100.0000 | 58.3333 | 95.6364 | 7 | 0 | 7 | 5 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l150_m0_e0 | het | 73.6842 | 100.0000 | 58.3333 | 95.1417 | 7 | 0 | 7 | 5 | 0 | 0.0000 | |
| anovak-vg | INDEL | * | map_l250_m0_e0 | het | 64.3289 | 71.6981 | 58.3333 | 98.2533 | 38 | 15 | 42 | 30 | 12 | 40.0000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 62.2222 | 66.6667 | 58.3333 | 94.7368 | 6 | 3 | 7 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l250_m1_e0 | * | 56.9106 | 55.5556 | 58.3333 | 95.4631 | 10 | 8 | 14 | 10 | 5 | 50.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 44.5230 | 36.0000 | 58.3333 | 84.0000 | 9 | 16 | 7 | 5 | 4 | 80.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 73.6842 | 100.0000 | 58.3333 | 83.5616 | 2 | 0 | 7 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 35.4132 | 25.4237 | 58.3333 | 64.1791 | 15 | 44 | 14 | 10 | 10 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | * | het | 72.3037 | 95.0301 | 58.3494 | 71.4553 | 3002 | 157 | 3026 | 2160 | 1899 | 87.9167 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.8331 | 93.3976 | 58.3587 | 78.4954 | 8530 | 603 | 8633 | 6160 | 87 | 1.4123 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.8331 | 93.3976 | 58.3587 | 78.4954 | 8530 | 603 | 8633 | 6160 | 87 | 1.4123 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 66.4593 | 77.1439 | 58.3743 | 42.1879 | 6477 | 1919 | 9372 | 6683 | 5135 | 76.8367 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.9723 | 87.2727 | 58.3961 | 90.3865 | 1104 | 161 | 1085 | 773 | 47 | 6.0802 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 42.4175 | 33.3041 | 58.3975 | 75.7745 | 380 | 761 | 379 | 270 | 267 | 98.8889 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 65.1903 | 73.6735 | 58.4590 | 47.5626 | 361 | 129 | 1396 | 992 | 627 | 63.2056 | |
| hfeng-pmm1 | INDEL | * | HG002compoundhet | homalt | 73.5533 | 99.1254 | 58.4695 | 77.3735 | 680 | 6 | 680 | 483 | 480 | 99.3789 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 72.5190 | 95.4545 | 58.4699 | 92.1862 | 105 | 5 | 107 | 76 | 29 | 38.1579 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 70.3688 | 88.2855 | 58.4973 | 39.9312 | 6519 | 865 | 16856 | 11959 | 10481 | 87.6411 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.6652 | 92.4180 | 58.5235 | 76.3191 | 451 | 37 | 436 | 309 | 284 | 91.9094 | |
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 39.2875 | 29.5634 | 58.5440 | 45.2777 | 1571 | 3743 | 3080 | 2181 | 1823 | 83.5855 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 61.8907 | 65.6250 | 58.5586 | 70.8916 | 189 | 99 | 195 | 138 | 60 | 43.4783 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 54.1762 | 50.3884 | 58.5798 | 35.8416 | 10378 | 10218 | 11153 | 7886 | 6105 | 77.4157 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 67.3887 | 79.3103 | 58.5827 | 62.2024 | 368 | 96 | 372 | 263 | 261 | 99.2395 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_siren | het | 72.0679 | 93.5897 | 58.5938 | 93.8343 | 73 | 5 | 75 | 53 | 38 | 71.6981 | |
| ghariani-varprowl | INDEL | D16_PLUS | * | het | 72.5780 | 95.3150 | 58.5993 | 70.3918 | 3011 | 148 | 3029 | 2140 | 2055 | 96.0280 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.5972 | 91.9862 | 58.6068 | 39.8738 | 9573 | 834 | 9608 | 6786 | 6745 | 99.3958 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 67.4035 | 79.2818 | 58.6207 | 66.4093 | 287 | 75 | 153 | 108 | 102 | 94.4444 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.1163 | 73.2026 | 58.6387 | 74.4652 | 112 | 41 | 112 | 79 | 62 | 78.4810 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 69.2577 | 84.5629 | 58.6437 | 58.1740 | 1364 | 249 | 1937 | 1366 | 183 | 13.3968 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 73.9336 | 100.0000 | 58.6466 | 95.6607 | 1 | 0 | 78 | 55 | 19 | 34.5455 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e0 | * | 53.4759 | 49.1379 | 58.6538 | 81.9130 | 57 | 59 | 61 | 43 | 25 | 58.1395 | |
| dgrover-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 73.8739 | 99.6960 | 58.6762 | 88.9153 | 328 | 1 | 328 | 231 | 231 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 73.8739 | 99.6960 | 58.6762 | 88.6290 | 328 | 1 | 328 | 231 | 231 | 100.0000 | |