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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49301-49350 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 49.2182 | 39.3273 | 65.7559 | 77.6192 | 304 | 469 | 361 | 188 | 52 | 27.6596 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 36.6202 | 25.3766 | 65.7534 | 73.0876 | 219 | 644 | 192 | 100 | 2 | 2.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 49.2494 | 39.3734 | 65.7385 | 28.0488 | 465 | 716 | 543 | 283 | 280 | 98.9399 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 51.5950 | 42.4685 | 65.7179 | 59.2998 | 2123 | 2876 | 2101 | 1096 | 789 | 71.9891 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 51.5950 | 42.4685 | 65.7179 | 59.2998 | 2123 | 2876 | 2101 | 1096 | 789 | 71.9891 | |
| anovak-vg | SNP | * | map_l150_m2_e0 | het | 75.9821 | 90.0512 | 65.7151 | 81.6508 | 18130 | 2003 | 17933 | 9356 | 2121 | 22.6699 | |
| mlin-fermikit | INDEL | * | map_l250_m0_e0 | * | 40.7080 | 29.4872 | 65.7143 | 95.2381 | 23 | 55 | 23 | 12 | 7 | 58.3333 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 79.3103 | 100.0000 | 65.7143 | 87.1324 | 23 | 0 | 23 | 12 | 11 | 91.6667 | |
| ciseli-custom | INDEL | * | map_l250_m1_e0 | * | 57.5139 | 51.1475 | 65.6904 | 97.4137 | 156 | 149 | 157 | 82 | 40 | 48.7805 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 73.1064 | 82.4147 | 65.6873 | 70.7937 | 628 | 134 | 626 | 327 | 81 | 24.7706 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 65.6652 | 95.8907 | 0 | 0 | 153 | 80 | 52 | 65.0000 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | * | 67.7462 | 69.9700 | 65.6593 | 96.4861 | 233 | 100 | 239 | 125 | 63 | 50.4000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.6399 | 92.0408 | 65.6542 | 80.0373 | 451 | 39 | 281 | 147 | 142 | 96.5986 | |
| eyeh-varpipe | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 65.6489 | 85.9893 | 0 | 0 | 86 | 45 | 39 | 86.6667 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e1 | * | 56.0921 | 48.9642 | 65.6489 | 92.3896 | 260 | 271 | 258 | 135 | 114 | 84.4444 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 76.3636 | 91.3043 | 65.6250 | 76.2963 | 21 | 2 | 21 | 11 | 10 | 90.9091 | |
| ciseli-custom | INDEL | I6_15 | map_l100_m1_e0 | * | 28.7671 | 18.4211 | 65.6250 | 88.7719 | 21 | 93 | 21 | 11 | 10 | 90.9091 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | het | 72.5540 | 81.1189 | 65.6250 | 96.1522 | 464 | 108 | 462 | 242 | 50 | 20.6612 | |
| gduggal-bwavard | INDEL | I6_15 | map_l150_m2_e1 | * | 71.1864 | 77.7778 | 65.6250 | 93.8697 | 21 | 6 | 21 | 11 | 4 | 36.3636 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l125_m1_e0 | * | 71.1864 | 77.7778 | 65.6250 | 95.4351 | 21 | 6 | 21 | 11 | 3 | 27.2727 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 77.7778 | 95.4545 | 65.6250 | 81.0651 | 21 | 1 | 21 | 11 | 8 | 72.7273 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.3936 | 42.2407 | 65.6103 | 66.2441 | 558 | 763 | 559 | 293 | 288 | 98.2935 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 77.5652 | 94.8718 | 65.5987 | 55.1946 | 703 | 38 | 778 | 408 | 397 | 97.3039 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 69.8354 | 74.6667 | 65.5914 | 51.8135 | 56 | 19 | 61 | 32 | 10 | 31.2500 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 73.9992 | 84.8853 | 65.5879 | 54.1770 | 629 | 112 | 608 | 319 | 304 | 95.2978 | |
| anovak-vg | SNP | tv | map_l150_m2_e1 | het | 76.1119 | 90.7050 | 65.5638 | 81.6339 | 6665 | 683 | 6658 | 3497 | 823 | 23.5345 | |
| gduggal-bwavard | INDEL | I6_15 | segdup | het | 78.4212 | 97.5904 | 65.5462 | 93.4795 | 81 | 2 | 78 | 41 | 40 | 97.5610 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e0 | * | 55.9084 | 48.7476 | 65.5352 | 92.4128 | 253 | 266 | 251 | 132 | 111 | 84.0909 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 31.0781 | 20.3704 | 65.5172 | 56.3910 | 22 | 86 | 38 | 20 | 20 | 100.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e0 | * | 13.7681 | 7.6923 | 65.5172 | 77.6923 | 2 | 24 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e0 | het | 19.0000 | 11.1111 | 65.5172 | 77.3438 | 2 | 16 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e1 | * | 13.7681 | 7.6923 | 65.5172 | 78.1955 | 2 | 24 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e1 | het | 19.0000 | 11.1111 | 65.5172 | 77.8626 | 2 | 16 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.9362 | 87.5375 | 65.5063 | 57.1453 | 1166 | 166 | 1656 | 872 | 119 | 13.6468 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.8686 | 77.1903 | 65.5039 | 70.0927 | 511 | 151 | 507 | 267 | 258 | 96.6292 | |
| ciseli-custom | INDEL | I16_PLUS | HG002complexvar | het | 19.4609 | 11.4286 | 65.4867 | 81.3223 | 76 | 589 | 74 | 39 | 19 | 48.7179 | |
| ckim-gatk | INDEL | D1_5 | HG002compoundhet | homalt | 79.0191 | 99.6564 | 65.4628 | 87.5701 | 290 | 1 | 290 | 153 | 152 | 99.3464 | |
| ckim-vqsr | INDEL | D1_5 | HG002compoundhet | homalt | 79.0191 | 99.6564 | 65.4628 | 87.5701 | 290 | 1 | 290 | 153 | 152 | 99.3464 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.1209 | 100.0000 | 65.4545 | 84.4193 | 169 | 0 | 72 | 38 | 37 | 97.3684 | |
| cchapple-custom | INDEL | C1_5 | map_l100_m2_e0 | * | 0.0000 | 0.0000 | 65.4545 | 95.2132 | 0 | 0 | 36 | 19 | 9 | 47.3684 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 78.5332 | 98.1982 | 65.4303 | 85.7535 | 436 | 8 | 441 | 233 | 107 | 45.9227 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.5901 | 79.0706 | 65.4026 | 31.3787 | 2161 | 572 | 5036 | 2664 | 2476 | 92.9429 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 60.4335 | 56.1688 | 65.3989 | 55.6013 | 692 | 540 | 705 | 373 | 177 | 47.4531 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 21.6364 | 12.9630 | 65.3846 | 59.3750 | 14 | 94 | 17 | 9 | 9 | 100.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 77.6739 | 95.6522 | 65.3846 | 90.8852 | 66 | 3 | 68 | 36 | 17 | 47.2222 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 71.6186 | 79.1667 | 65.3846 | 43.4783 | 19 | 5 | 17 | 9 | 9 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | segdup | * | 48.3031 | 38.2979 | 65.3846 | 88.6463 | 18 | 29 | 17 | 9 | 5 | 55.5556 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | het | 75.9484 | 90.6371 | 65.3567 | 81.6125 | 6573 | 679 | 6569 | 3482 | 815 | 23.4061 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.6349 | 65.9236 | 65.3487 | 72.3679 | 828 | 428 | 909 | 482 | 71 | 14.7303 | |
| anovak-vg | SNP | ti | map_l150_m1_e0 | het | 75.5864 | 89.6281 | 65.3485 | 80.5450 | 11087 | 1283 | 11006 | 5836 | 1295 | 22.1899 | |