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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85401-85450 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.5545 | 74.9201 | 99.7073 | 29.8906 | 938 | 314 | 1022 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.9531 | 94.2953 | 99.7651 | 38.9579 | 2529 | 153 | 2548 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.0371 | 92.9707 | 99.3127 | 30.7967 | 1111 | 84 | 1156 | 8 | 8 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.2940 | 96.7497 | 99.8884 | 27.0952 | 893 | 30 | 895 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9071 | 99.9535 | 99.8607 | 47.4506 | 2151 | 1 | 2151 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 57.6271 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.9805 | 88.9241 | 99.6466 | 70.0529 | 281 | 35 | 282 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3458 | 99.8122 | 98.8837 | 68.5948 | 1063 | 2 | 1063 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 66.6667 | 100.0000 | 50.0000 | 98.3607 | 1 | 0 | 1 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.9445 | 98.1905 | 99.7101 | 62.6893 | 1031 | 19 | 1032 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4666 | 99.1489 | 99.7863 | 69.8065 | 466 | 4 | 467 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6269 | 100.0000 | 99.2565 | 66.1635 | 267 | 0 | 267 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m0_e0 | homalt | 98.5294 | 100.0000 | 97.1014 | 88.8350 | 67 | 0 | 67 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l250_m0_e0 | homalt | 94.7368 | 100.0000 | 90.0000 | 96.7638 | 9 | 0 | 9 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l250_m1_e0 | homalt | 96.6292 | 97.7273 | 95.5556 | 94.2085 | 43 | 1 | 43 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l250_m2_e0 | homalt | 96.7033 | 97.7778 | 95.6522 | 95.0484 | 44 | 1 | 44 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l250_m2_e1 | homalt | 96.7742 | 97.8261 | 95.7447 | 95.0370 | 45 | 1 | 45 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | segdup | homalt | 99.4720 | 99.5772 | 99.3671 | 92.8539 | 471 | 2 | 471 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | * | 97.9019 | 96.8698 | 98.9563 | 57.2482 | 4642 | 150 | 4646 | 49 | 49 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | het | 99.1867 | 98.5563 | 99.8253 | 59.8421 | 2321 | 34 | 2285 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.1392 | 99.9176 | 96.4229 | 55.6886 | 1213 | 1 | 1213 | 45 | 45 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | het | 84.9309 | 97.1154 | 75.4630 | 84.4268 | 202 | 6 | 163 | 53 | 53 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9134 | 100.0000 | 86.7647 | 77.2575 | 59 | 0 | 59 | 9 | 9 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.2496 | 92.7964 | 99.9698 | 39.4554 | 3272 | 254 | 3312 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.2973 | 100.0000 | 94.7368 | 69.6000 | 36 | 0 | 36 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5718 | 97.4576 | 99.7118 | 70.3672 | 345 | 9 | 346 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4595 | 100.0000 | 98.9247 | 70.0000 | 92 | 0 | 92 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.8889 | 100.0000 | 80.0000 | 80.0000 | 24 | 0 | 24 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.0510 | 92.4380 | 99.9581 | 32.0604 | 2347 | 192 | 2383 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5047 | 93.2877 | 99.9516 | 30.4275 | 2043 | 147 | 2066 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.9688 | 92.2844 | 99.9596 | 33.6636 | 2440 | 204 | 2476 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.2496 | 92.7964 | 99.9698 | 39.4554 | 3272 | 254 | 3312 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.9181 | 92.2078 | 99.9396 | 36.0371 | 1633 | 138 | 1655 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3103 | 100.0000 | 98.6301 | 67.8414 | 216 | 0 | 216 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.5307 | 91.9355 | 99.4186 | 70.2936 | 171 | 15 | 171 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 0.0000 | 0.0000 | 96.5517 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| jmaeng-gatk | INDEL | I6_15 | map_l250_m0_e0 | * | 0.0000 | 0.0000 | 99.4253 | 0 | 1 | 0 | 1 | 1 | 100.0000 | ||
| jmaeng-gatk | INDEL | I6_15 | map_l250_m0_e0 | het | 0.0000 | 0.0000 | 99.2424 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| jmaeng-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 66.6667 | 57.1429 | 80.0000 | 98.7277 | 4 | 3 | 4 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m1_e0 | het | 57.1429 | 50.0000 | 66.6667 | 98.9437 | 2 | 2 | 2 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m2_e0 | * | 71.4286 | 62.5000 | 83.3333 | 98.6577 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m2_e0 | het | 66.6667 | 60.0000 | 75.0000 | 98.7730 | 3 | 2 | 3 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m2_e1 | * | 71.4286 | 62.5000 | 83.3333 | 98.7207 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m2_e1 | het | 66.6667 | 60.0000 | 75.0000 | 98.8304 | 3 | 2 | 3 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_siren | homalt | 97.2678 | 98.8889 | 95.6989 | 85.7143 | 89 | 1 | 89 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | SNP | * | HG002complexvar | hetalt | 97.8723 | 96.4516 | 99.3355 | 40.5138 | 299 | 11 | 299 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.7420 | 99.5423 | 99.9426 | 61.0950 | 1740 | 8 | 1740 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8116 | 99.6584 | 99.9652 | 56.5451 | 20130 | 69 | 20130 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5328 | 99.1399 | 99.9287 | 67.1581 | 16829 | 146 | 16829 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4189 | 98.9485 | 99.8938 | 85.6381 | 941 | 10 | 941 | 1 | 1 | 100.0000 | |