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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26051-26100 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9648 | 89.8058 | 96.3542 | 88.3918 | 185 | 21 | 185 | 7 | 3 | 42.8571 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 90.9091 | 100.0000 | 83.3333 | 92.3858 | 25 | 0 | 25 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.1476 | 94.4444 | 97.9133 | 88.6665 | 629 | 37 | 610 | 13 | 3 | 23.0769 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.1476 | 94.4444 | 97.9133 | 88.6665 | 629 | 37 | 610 | 13 | 3 | 23.0769 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.4291 | 95.0000 | 95.8621 | 89.7959 | 152 | 8 | 139 | 6 | 3 | 50.0000 | |
| jmaeng-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 95.4604 | 91.3394 | 99.9708 | 56.0929 | 10209 | 968 | 10266 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.0184 | 92.3880 | 99.9457 | 61.4714 | 5486 | 452 | 5522 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.0050 | 99.5000 | 98.5149 | 61.3027 | 199 | 1 | 199 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.1862 | 98.8261 | 99.5489 | 78.4824 | 1347 | 16 | 1324 | 6 | 3 | 50.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0355 | 98.4951 | 99.5819 | 70.6787 | 2618 | 40 | 2620 | 11 | 3 | 27.2727 | |
| 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 | map_l100_m0_e0 | * | 97.2027 | 98.8950 | 95.5674 | 89.4362 | 537 | 6 | 539 | 25 | 3 | 12.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0476 | 100.0000 | 98.1132 | 80.5147 | 208 | 0 | 208 | 4 | 3 | 75.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7337 | 98.5542 | 96.9267 | 89.8768 | 818 | 12 | 820 | 26 | 3 | 11.5385 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 97.6916 | 98.5998 | 96.8000 | 90.6836 | 845 | 12 | 847 | 28 | 3 | 10.7143 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 97.6702 | 98.6207 | 96.7379 | 90.7511 | 858 | 12 | 860 | 29 | 3 | 10.3448 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m1_e0 | * | 96.8834 | 98.0237 | 95.7692 | 92.4077 | 496 | 10 | 498 | 22 | 3 | 13.6364 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 96.8684 | 98.0732 | 95.6929 | 93.1327 | 509 | 10 | 511 | 23 | 3 | 13.0435 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m2_e1 | * | 96.8484 | 98.1168 | 95.6124 | 93.1462 | 521 | 10 | 523 | 24 | 3 | 12.5000 | |
| jmaeng-gatk | INDEL | I1_5 | segdup | * | 96.0650 | 98.9613 | 93.3333 | 95.5900 | 1048 | 11 | 1050 | 75 | 3 | 4.0000 | |
| 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 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.9996 | 94.3320 | 97.7273 | 81.2766 | 233 | 14 | 215 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0711 | 93.2886 | 96.9231 | 77.9661 | 139 | 10 | 126 | 4 | 3 | 75.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.2739 | 96.9720 | 99.6112 | 61.8511 | 1281 | 40 | 1281 | 5 | 3 | 60.0000 | |
| 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 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.2405 | 95.8549 | 98.6667 | 91.0990 | 370 | 16 | 370 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.0696 | 96.0145 | 98.1481 | 91.0979 | 265 | 11 | 265 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7449 | 99.5401 | 99.9505 | 54.6217 | 6060 | 28 | 6060 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | homalt | 76.4825 | 61.9363 | 99.9583 | 70.3301 | 7197 | 4423 | 7197 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.7144 | 62.2360 | 99.9715 | 73.5225 | 10521 | 6384 | 10521 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | homalt | 77.2870 | 62.9928 | 99.9726 | 75.5188 | 10945 | 6430 | 10945 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | homalt | 77.4376 | 63.1930 | 99.9729 | 75.4660 | 11079 | 6453 | 11079 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m0_e0 | * | 63.1215 | 46.9789 | 96.1649 | 98.1269 | 1003 | 1132 | 1003 | 40 | 3 | 7.5000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4555 | 99.2754 | 99.6364 | 86.7438 | 1096 | 8 | 1096 | 4 | 3 | 75.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3046 | 99.1667 | 99.4429 | 87.9933 | 714 | 6 | 714 | 4 | 3 | 75.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.8449 | 99.7933 | 99.8965 | 69.7243 | 4827 | 10 | 4827 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8093 | 99.7776 | 99.8411 | 72.0082 | 3141 | 7 | 3141 | 5 | 3 | 60.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7764 | 99.6650 | 99.8881 | 47.1210 | 6247 | 21 | 6247 | 7 | 3 | 42.8571 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1051 | 98.6148 | 99.6003 | 69.7196 | 1495 | 21 | 1495 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 62.0690 | 52.9412 | 75.0000 | 99.6461 | 9 | 8 | 9 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 76.1905 | 80.0000 | 72.7273 | 99.5621 | 8 | 2 | 8 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l125_m0_e0 | homalt | 95.6522 | 92.9577 | 98.5075 | 86.7063 | 264 | 20 | 264 | 4 | 3 | 75.0000 | |
| jpowers-varprowl | INDEL | * | map_l150_m1_e0 | homalt | 95.2915 | 91.9913 | 98.8372 | 86.0931 | 425 | 37 | 425 | 5 | 3 | 60.0000 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | homalt | 95.3714 | 92.0998 | 98.8839 | 87.1375 | 443 | 38 | 443 | 5 | 3 | 60.0000 | |
| jpowers-varprowl | INDEL | * | map_l250_m0_e0 | * | 91.6129 | 91.0256 | 92.2078 | 98.2130 | 71 | 7 | 71 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | * | map_l250_m0_e0 | het | 90.7407 | 92.4528 | 89.0909 | 98.3513 | 49 | 4 | 49 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m1_e0 | het | 92.6606 | 90.9910 | 94.3925 | 96.3680 | 101 | 10 | 101 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m2_e0 | het | 93.2773 | 91.7355 | 94.8718 | 96.5022 | 111 | 10 | 111 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m2_e1 | het | 93.3333 | 91.8033 | 94.9153 | 96.5547 | 112 | 10 | 112 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 88.2468 | 79.8834 | 98.5663 | 50.7937 | 274 | 69 | 275 | 4 | 3 | 75.0000 | |