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 | |||||||||||||||
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | * | 80.6452 | 89.2857 | 73.5294 | 96.2842 | 25 | 3 | 25 | 9 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 90.0901 | 89.2857 | 90.9091 | 84.7575 | 100 | 12 | 60 | 6 | 6 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | map_l125_m2_e1 | * | 51.5647 | 89.2857 | 36.2500 | 95.6873 | 25 | 3 | 29 | 51 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_l100_m0_e0 | * | 85.0785 | 89.2857 | 81.2500 | 90.6158 | 25 | 3 | 26 | 6 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l125_m2_e1 | * | 92.5926 | 89.2857 | 96.1538 | 93.2468 | 25 | 3 | 25 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m0_e0 | * | 87.7193 | 89.2857 | 86.2069 | 94.9740 | 25 | 3 | 25 | 4 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.7198 | 89.2857 | 96.4286 | 59.4203 | 25 | 3 | 27 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m2_e1 | * | 92.5212 | 89.2857 | 96.0000 | 89.9194 | 25 | 3 | 24 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | * | 86.2069 | 89.2857 | 83.3333 | 96.8051 | 25 | 3 | 25 | 5 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l125_m2_e1 | * | 86.2069 | 89.2857 | 83.3333 | 97.4116 | 25 | 3 | 25 | 5 | 1 | 20.0000 | |
| jli-custom | INDEL | D16_PLUS | map_l100_m0_e0 | * | 89.2857 | 89.2857 | 89.2857 | 95.0000 | 25 | 3 | 25 | 3 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | map_siren | hetalt | 94.3396 | 89.2857 | 100.0000 | 88.0668 | 100 | 12 | 100 | 0 | 0 | ||
| ckim-dragen | INDEL | D16_PLUS | map_l125_m2_e1 | * | 80.6452 | 89.2857 | 73.5294 | 97.5887 | 25 | 3 | 25 | 9 | 2 | 22.2222 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.3396 | 89.2857 | 100.0000 | 58.4615 | 25 | 3 | 27 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 43.5112 | 89.2820 | 28.7648 | 54.7750 | 858 | 103 | 850 | 2105 | 2053 | 97.5297 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.1730 | 89.2820 | 74.4143 | 49.8151 | 858 | 103 | 2827 | 972 | 485 | 49.8971 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 92.7341 | 89.2791 | 96.4674 | 63.8560 | 13907 | 1670 | 13927 | 510 | 296 | 58.0392 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.1217 | 89.2704 | 99.5305 | 73.3750 | 208 | 25 | 212 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 76.6853 | 89.2624 | 67.2148 | 71.4466 | 27458 | 3303 | 27386 | 13358 | 11870 | 88.8606 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.2788 | 89.2617 | 97.6744 | 69.3587 | 133 | 16 | 126 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.3491 | 89.2617 | 89.4366 | 73.6549 | 133 | 16 | 127 | 15 | 9 | 60.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 94.1021 | 89.2612 | 99.4983 | 58.0297 | 9085 | 1093 | 9122 | 46 | 12 | 26.0870 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.1917 | 89.2562 | 99.7050 | 47.1139 | 324 | 39 | 338 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 90.5469 | 89.2517 | 91.8803 | 54.0275 | 656 | 79 | 645 | 57 | 56 | 98.2456 | |
| gduggal-snapplat | SNP | * | map_l125_m2_e0 | homalt | 94.2904 | 89.2489 | 99.9355 | 69.8671 | 15507 | 1868 | 15497 | 10 | 9 | 90.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.3929 | 89.2473 | 97.9424 | 67.1177 | 166 | 20 | 238 | 5 | 4 | 80.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.1575 | 89.2405 | 99.6479 | 69.7551 | 282 | 34 | 283 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.1925 | 89.2396 | 99.7275 | 37.7439 | 622 | 75 | 732 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.0029 | 89.2396 | 97.0976 | 37.9705 | 622 | 75 | 736 | 22 | 18 | 81.8182 | |
| ciseli-custom | INDEL | I1_5 | * | homalt | 89.1001 | 89.2384 | 88.9622 | 46.9528 | 53925 | 6503 | 53678 | 6660 | 6265 | 94.0691 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.4810 | 89.2361 | 95.9707 | 74.6988 | 257 | 31 | 262 | 11 | 1 | 9.0909 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.5423 | 89.2344 | 98.2872 | 66.4011 | 746 | 90 | 746 | 13 | 11 | 84.6154 | |
| jlack-gatk | INDEL | * | segdup | hetalt | 94.3089 | 89.2308 | 100.0000 | 94.9936 | 116 | 14 | 117 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e0 | homalt | 94.3089 | 89.2308 | 100.0000 | 87.9418 | 58 | 7 | 58 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | * | * | 90.2130 | 89.2296 | 91.2183 | 56.6455 | 130940 | 15805 | 132532 | 12759 | 9010 | 70.6168 | |
| gduggal-snapvard | INDEL | I1_5 | HG002complexvar | * | 89.7354 | 89.2273 | 90.2494 | 52.3644 | 29768 | 3594 | 28665 | 3097 | 2248 | 72.5864 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.0819 | 89.2259 | 99.4969 | 40.1872 | 3412 | 412 | 3560 | 18 | 17 | 94.4444 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.1684 | 89.2210 | 99.6967 | 86.2237 | 985 | 119 | 986 | 3 | 1 | 33.3333 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 91.6035 | 89.2202 | 94.1176 | 80.0098 | 389 | 47 | 384 | 24 | 22 | 91.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.1169 | 89.2193 | 99.5833 | 74.7102 | 240 | 29 | 239 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I1_5 | segdup | homalt | 90.4345 | 89.2178 | 91.6849 | 90.5285 | 422 | 51 | 419 | 38 | 38 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 82.7273 | 89.2157 | 77.1186 | 54.2636 | 91 | 11 | 91 | 27 | 27 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | HG002compoundhet | het | 94.2146 | 89.2146 | 99.8084 | 51.8565 | 4169 | 504 | 4167 | 8 | 2 | 25.0000 | |
| gduggal-snapvard | INDEL | * | map_l100_m1_e0 | * | 85.9341 | 89.2080 | 82.8920 | 85.9643 | 3199 | 387 | 4414 | 911 | 427 | 46.8716 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | * | 91.8129 | 89.2045 | 94.5783 | 94.1487 | 157 | 19 | 157 | 9 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.1017 | 89.1985 | 95.2002 | 47.3849 | 13188 | 1597 | 14241 | 718 | 698 | 97.2145 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 40.7774 | 89.1980 | 26.4300 | 49.8268 | 545 | 66 | 536 | 1492 | 1475 | 98.8606 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 94.0154 | 89.1967 | 99.3846 | 57.7373 | 322 | 39 | 323 | 2 | 0 | 0.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 51.0479 | 89.1961 | 35.7556 | 37.7138 | 1742 | 211 | 1732 | 3112 | 2889 | 92.8342 | |
| gduggal-snapvard | INDEL | * | map_l100_m2_e0 | * | 86.0203 | 89.1958 | 83.0632 | 86.5245 | 3294 | 399 | 4561 | 930 | 439 | 47.2043 | |