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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75301-75350 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | HG002compoundhet | * | 99.2746 | 98.6669 | 99.8899 | 35.7263 | 17245 | 233 | 17243 | 19 | 18 | 94.7368 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5527 | 99.7211 | 97.4114 | 61.5908 | 715 | 2 | 715 | 19 | 18 | 94.7368 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.1899 | 100.0000 | 90.8213 | 67.6056 | 188 | 0 | 188 | 19 | 18 | 94.7368 | |
| anovak-vg | SNP | ti | map_l100_m2_e0 | homalt | 92.0181 | 85.6628 | 99.3921 | 60.4480 | 15684 | 2625 | 15532 | 95 | 90 | 94.7368 | |
| anovak-vg | SNP | ti | map_l100_m2_e1 | homalt | 92.0569 | 85.7251 | 99.3985 | 60.4006 | 15854 | 2640 | 15700 | 95 | 90 | 94.7368 | |
| anovak-vg | SNP | ti | map_l150_m0_e0 | homalt | 84.9295 | 74.3209 | 99.0709 | 76.2265 | 2052 | 709 | 2026 | 19 | 18 | 94.7368 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 90.6015 | 98.9733 | 83.5355 | 66.2376 | 482 | 5 | 482 | 95 | 90 | 94.7368 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 30.4000 | 21.8391 | 50.0000 | 86.7133 | 19 | 68 | 19 | 19 | 18 | 94.7368 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 57.1429 | 66.6667 | 50.0000 | 84.9206 | 18 | 9 | 19 | 19 | 18 | 94.7368 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 39.0244 | 34.0426 | 45.7143 | 78.5276 | 16 | 31 | 16 | 19 | 18 | 94.7368 | |
| gduggal-snapplat | SNP | * | * | hetalt | 96.2665 | 94.8335 | 97.7435 | 52.4025 | 826 | 45 | 823 | 19 | 18 | 94.7368 | |
| gduggal-snapplat | SNP | tv | * | hetalt | 96.2665 | 94.8335 | 97.7435 | 52.4025 | 826 | 45 | 823 | 19 | 18 | 94.7368 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 57.4446 | 41.4634 | 93.4708 | 72.4562 | 561 | 792 | 544 | 38 | 36 | 94.7368 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002compoundhet | het | 64.7528 | 50.1235 | 91.4414 | 72.1455 | 203 | 202 | 203 | 19 | 18 | 94.7368 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 69.0901 | 55.6851 | 90.9953 | 55.8577 | 191 | 152 | 192 | 19 | 18 | 94.7368 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m2_e0 | * | 86.1910 | 84.9206 | 87.5000 | 87.6423 | 107 | 19 | 133 | 19 | 18 | 94.7368 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m2_e1 | * | 85.9091 | 84.3750 | 87.5000 | 87.8981 | 108 | 20 | 133 | 19 | 18 | 94.7368 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 20.3390 | 13.7931 | 38.7097 | 86.2222 | 12 | 75 | 12 | 19 | 18 | 94.7368 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 39.6992 | 40.7407 | 38.7097 | 83.7696 | 11 | 16 | 12 | 19 | 18 | 94.7368 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.2099 | 94.9264 | 93.5043 | 70.1531 | 580 | 31 | 547 | 38 | 36 | 94.7368 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.0159 | 93.8240 | 98.3126 | 56.1185 | 1109 | 73 | 1107 | 19 | 18 | 94.7368 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 82.2326 | 82.2222 | 82.2430 | 78.7698 | 111 | 24 | 88 | 19 | 18 | 94.7368 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.9863 | 79.9619 | 97.8009 | 49.2660 | 1680 | 421 | 1690 | 38 | 36 | 94.7368 | |
| mlin-fermikit | SNP | * | map_l125_m2_e0 | homalt | 66.1120 | 58.0777 | 76.7260 | 57.2932 | 10091 | 7284 | 10091 | 3061 | 2900 | 94.7403 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 48.1114 | 83.3977 | 33.8073 | 56.3749 | 216 | 43 | 214 | 419 | 397 | 94.7494 | |
| gduggal-bwafb | INDEL | I6_15 | * | het | 88.0827 | 80.5342 | 97.1926 | 38.4775 | 8080 | 1953 | 13848 | 400 | 379 | 94.7500 | |
| mlin-fermikit | SNP | * | map_l125_m2_e1 | homalt | 66.2819 | 58.2991 | 76.7977 | 57.4167 | 10221 | 7311 | 10221 | 3088 | 2926 | 94.7539 | |
| mlin-fermikit | SNP | tv | * | homalt | 98.8702 | 98.8876 | 98.8528 | 20.1908 | 372928 | 4195 | 372923 | 4328 | 4101 | 94.7551 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.3814 | 98.9059 | 76.6723 | 45.1991 | 2260 | 25 | 2258 | 687 | 651 | 94.7598 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.8579 | 98.3570 | 99.3639 | 41.8770 | 17959 | 300 | 17963 | 115 | 109 | 94.7826 | |
| rpoplin-dv42 | SNP | * | HG002complexvar | homalt | 99.9511 | 99.9421 | 99.9601 | 19.9304 | 288407 | 167 | 288378 | 115 | 109 | 94.7826 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 39.0586 | 33.8542 | 46.1538 | 69.3790 | 130 | 254 | 132 | 154 | 146 | 94.8052 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.2149 | 89.1589 | 95.4879 | 47.4893 | 33793 | 4109 | 39553 | 1869 | 1772 | 94.8101 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002compoundhet | het | 73.4421 | 80.9877 | 67.1827 | 49.1339 | 328 | 77 | 434 | 212 | 201 | 94.8113 | |
| eyeh-varpipe | INDEL | D6_15 | * | hetalt | 46.3037 | 30.5358 | 95.7427 | 56.1168 | 2496 | 5678 | 3036 | 135 | 128 | 94.8148 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | homalt | 72.0127 | 66.5183 | 78.4964 | 53.5791 | 6129 | 3085 | 6129 | 1679 | 1592 | 94.8183 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6356 | 99.6862 | 97.6069 | 67.4063 | 18109 | 57 | 18109 | 444 | 421 | 94.8198 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6356 | 99.6862 | 97.6069 | 67.4063 | 18109 | 57 | 18109 | 444 | 421 | 94.8198 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.1562 | 93.5723 | 94.7476 | 64.3692 | 5692 | 391 | 5574 | 309 | 293 | 94.8220 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 74.6828 | 72.3465 | 77.1751 | 57.2642 | 1520 | 581 | 1437 | 425 | 403 | 94.8235 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6832 | 96.0089 | 99.4168 | 42.4933 | 19774 | 822 | 19775 | 116 | 110 | 94.8276 | |
| 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-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 78.6395 | 95.0820 | 67.0455 | 69.1769 | 116 | 6 | 118 | 58 | 55 | 94.8276 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 55.0794 | 89.0909 | 39.8618 | 59.0952 | 343 | 42 | 346 | 522 | 495 | 94.8276 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.7152 | 96.0167 | 97.4238 | 54.7331 | 8027 | 333 | 8055 | 213 | 202 | 94.8357 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.7152 | 96.0167 | 97.4238 | 54.7331 | 8027 | 333 | 8055 | 213 | 202 | 94.8357 | |
| cchapple-custom | INDEL | D6_15 | HG002compoundhet | het | 96.2282 | 94.6262 | 97.8854 | 30.8078 | 810 | 46 | 9860 | 213 | 202 | 94.8357 | |
| mlin-fermikit | SNP | * | HG002complexvar | * | 98.2239 | 97.1863 | 99.2840 | 18.6883 | 733159 | 21226 | 733074 | 5287 | 5014 | 94.8364 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e1 | homalt | 72.1476 | 66.6523 | 78.6303 | 53.6694 | 6200 | 3102 | 6200 | 1685 | 1598 | 94.8368 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.8618 | 90.5873 | 97.3819 | 58.7738 | 3609 | 375 | 3608 | 97 | 92 | 94.8454 | |