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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16451-16500 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0140 | 98.1239 | 99.9205 | 31.1473 | 5021 | 96 | 5025 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002complexvar | hetalt | 96.3808 | 94.4380 | 98.4052 | 70.6127 | 1630 | 96 | 1666 | 27 | 26 | 96.2963 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.3878 | 94.0484 | 96.7658 | 60.9497 | 1517 | 96 | 1496 | 50 | 29 | 58.0000 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e0 | homalt | 99.7835 | 99.6512 | 99.9162 | 62.4810 | 27427 | 96 | 27427 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.7857 | 99.6546 | 99.9170 | 62.4746 | 27700 | 96 | 27700 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | SNP | tv | map_l250_m1_e0 | * | 97.8332 | 96.3733 | 99.3380 | 86.1787 | 2551 | 96 | 2551 | 17 | 10 | 58.8235 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e0 | * | 97.9722 | 97.4005 | 98.5507 | 83.3204 | 3597 | 96 | 3604 | 53 | 13 | 24.5283 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.0130 | 91.8782 | 84.4600 | 56.4024 | 1086 | 96 | 1087 | 200 | 133 | 66.5000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 84.5480 | 74.7368 | 97.3244 | 58.8721 | 284 | 96 | 291 | 8 | 7 | 87.5000 | |
| ckim-dragen | INDEL | * | map_l100_m1_e0 | * | 96.9560 | 97.3229 | 96.5919 | 86.1888 | 3490 | 96 | 3486 | 123 | 19 | 15.4472 | |
| ciseli-custom | INDEL | * | map_l250_m2_e0 | het | 58.1040 | 54.2857 | 62.5000 | 97.7123 | 114 | 96 | 115 | 69 | 33 | 47.8261 | |
| ckim-isaac | INDEL | * | map_l250_m2_e0 | het | 69.7358 | 54.2857 | 97.4790 | 97.5555 | 114 | 96 | 116 | 3 | 3 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | * | 51.7241 | 45.4545 | 60.0000 | 94.3966 | 80 | 96 | 78 | 52 | 39 | 75.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 35.9715 | 48.9362 | 28.4375 | 54.0890 | 92 | 96 | 91 | 229 | 220 | 96.0699 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6301 | 95.4887 | 95.7720 | 73.1847 | 2032 | 96 | 2016 | 89 | 78 | 87.6404 | |
| ckim-dragen | SNP | ti | map_l150_m0_e0 | het | 96.9562 | 98.1165 | 95.8230 | 83.8541 | 5001 | 96 | 5001 | 218 | 18 | 8.2569 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | hetalt | 97.1421 | 94.4959 | 99.9407 | 69.6380 | 1631 | 95 | 1685 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8861 | 98.5202 | 99.2547 | 76.5663 | 6325 | 95 | 6259 | 47 | 29 | 61.7021 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8861 | 98.5202 | 99.2547 | 76.5663 | 6325 | 95 | 6259 | 47 | 29 | 61.7021 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7531 | 99.6254 | 99.8811 | 52.9851 | 25264 | 95 | 25209 | 30 | 21 | 70.0000 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.0190 | 98.4844 | 95.5966 | 46.9536 | 6173 | 95 | 6209 | 286 | 37 | 12.9371 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.2927 | 99.2413 | 99.3442 | 65.4836 | 12426 | 95 | 12270 | 81 | 75 | 92.5926 | |
| ckim-dragen | SNP | tv | map_l100_m0_e0 | het | 97.5576 | 98.6846 | 96.4561 | 76.6502 | 7127 | 95 | 7131 | 262 | 21 | 8.0153 | |
| ckim-gatk | INDEL | I1_5 | * | homalt | 99.7125 | 99.8428 | 99.5825 | 55.2232 | 60333 | 95 | 60339 | 253 | 249 | 98.4190 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 55.0938 | 52.7363 | 57.6720 | 74.5283 | 106 | 95 | 109 | 80 | 46 | 57.5000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 18.5714 | 12.0370 | 40.6250 | 54.2857 | 13 | 95 | 13 | 19 | 3 | 15.7895 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.3610 | 98.4844 | 98.2380 | 45.9412 | 6173 | 95 | 6300 | 113 | 46 | 40.7080 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.8703 | 95.1801 | 98.6216 | 73.1527 | 1876 | 95 | 2218 | 31 | 19 | 61.2903 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.8703 | 95.1801 | 98.6216 | 73.1527 | 1876 | 95 | 2218 | 31 | 19 | 61.2903 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | * | 98.5836 | 98.0175 | 99.1563 | 57.7225 | 4697 | 95 | 4701 | 40 | 39 | 97.5000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 85.0898 | 75.0000 | 98.3165 | 64.4737 | 285 | 95 | 292 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.3002 | 90.5190 | 98.4110 | 62.1036 | 907 | 95 | 929 | 15 | 5 | 33.3333 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.5713 | 92.7921 | 96.4200 | 59.1883 | 1223 | 95 | 1212 | 45 | 44 | 97.7778 | |
| jli-custom | SNP | * | map_l100_m1_e0 | homalt | 99.7923 | 99.6482 | 99.9369 | 57.0814 | 26908 | 95 | 26908 | 17 | 16 | 94.1176 | |
| jpowers-varprowl | INDEL | I1_5 | map_siren | het | 93.3720 | 94.3486 | 92.4154 | 83.6731 | 1586 | 95 | 1584 | 130 | 105 | 80.7692 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2384 | 98.5913 | 97.8879 | 54.8387 | 6649 | 95 | 6674 | 144 | 10 | 6.9444 | |
| raldana-dualsentieon | SNP | ti | map_l150_m0_e0 | het | 97.9052 | 98.1362 | 97.6753 | 80.7049 | 5002 | 95 | 5000 | 119 | 1 | 0.8403 | |
| raldana-dualsentieon | SNP | tv | map_l125_m1_e0 | het | 98.8615 | 99.0618 | 98.6621 | 72.9114 | 10031 | 95 | 10029 | 136 | 1 | 0.7353 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e0 | het | 98.8912 | 99.0902 | 98.6930 | 74.4522 | 10347 | 95 | 10345 | 137 | 1 | 0.7299 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e1 | het | 98.8982 | 99.0998 | 98.6974 | 74.5288 | 10458 | 95 | 10456 | 138 | 1 | 0.7246 | |
| raldana-dualsentieon | INDEL | I1_5 | * | homalt | 99.6902 | 99.8428 | 99.5381 | 54.0742 | 60333 | 95 | 60337 | 280 | 279 | 99.6429 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002complexvar | het | 96.6823 | 95.9660 | 97.4093 | 58.8413 | 2260 | 95 | 2256 | 60 | 55 | 91.6667 | |
| eyeh-varpipe | SNP | tv | HG002complexvar | homalt | 99.9220 | 99.9001 | 99.9440 | 20.4163 | 95016 | 95 | 89180 | 50 | 38 | 76.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.4033 | 98.6198 | 88.7109 | 85.7951 | 6788 | 95 | 6813 | 867 | 96 | 11.0727 | |
| gduggal-bwavard | INDEL | * | map_l100_m0_e0 | * | 89.2130 | 93.9219 | 84.9537 | 89.1607 | 1468 | 95 | 1468 | 260 | 67 | 25.7692 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 48.6441 | 89.1553 | 33.4464 | 63.7189 | 781 | 95 | 789 | 1570 | 1544 | 98.3439 | |
| gduggal-bwafb | SNP | tv | map_siren | homalt | 99.6686 | 99.4490 | 99.8893 | 56.7363 | 17145 | 95 | 17145 | 19 | 11 | 57.8947 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.3933 | 76.1905 | 97.1246 | 62.8266 | 304 | 95 | 304 | 9 | 7 | 77.7778 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m0_e0 | het | 67.1280 | 50.5208 | 100.0000 | 96.7944 | 97 | 95 | 97 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 68.4366 | 54.9763 | 90.6250 | 82.2960 | 116 | 95 | 116 | 12 | 11 | 91.6667 | |