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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18001-18050 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | * | HG002complexvar | * | 99.3276 | 99.0226 | 99.6345 | 58.1713 | 76186 | 752 | 76048 | 279 | 226 | 81.0036 | |
| ckim-gatk | INDEL | * | HG002complexvar | het | 99.6665 | 99.5780 | 99.7552 | 57.8728 | 46017 | 195 | 45636 | 112 | 64 | 57.1429 | |
| ckim-gatk | INDEL | * | HG002complexvar | hetalt | 91.5474 | 85.7529 | 98.1818 | 66.4439 | 3172 | 527 | 3402 | 63 | 63 | 100.0000 | |
| ckim-gatk | INDEL | * | HG002complexvar | homalt | 99.7525 | 99.8890 | 99.6164 | 57.3371 | 26997 | 30 | 27010 | 104 | 99 | 95.1923 | |
| ckim-gatk | INDEL | * | HG002compoundhet | * | 93.9895 | 92.8338 | 95.1743 | 62.6651 | 27813 | 2147 | 27690 | 1404 | 1391 | 99.0741 | |
| ckim-gatk | INDEL | * | HG002compoundhet | het | 93.4586 | 98.5589 | 88.8602 | 79.6039 | 4035 | 59 | 3789 | 475 | 465 | 97.8947 | |
| ckim-gatk | INDEL | * | HG002compoundhet | hetalt | 95.5666 | 91.7156 | 99.7551 | 50.3022 | 23094 | 2086 | 23217 | 57 | 57 | 100.0000 | |
| ckim-gatk | INDEL | * | HG002compoundhet | homalt | 61.0169 | 99.7085 | 43.9589 | 84.7301 | 684 | 2 | 684 | 872 | 869 | 99.6560 | |
| ckim-gatk | INDEL | * | decoy | * | 95.2381 | 100.0000 | 90.9091 | 99.9688 | 10 | 0 | 10 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | decoy | het | 92.3077 | 100.0000 | 85.7143 | 99.9767 | 6 | 0 | 6 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | decoy | hetalt | 100.0000 | 100.0000 | 100.0000 | 99.8485 | 1 | 0 | 1 | 0 | 0 | ||
| ckim-gatk | INDEL | * | decoy | homalt | 100.0000 | 100.0000 | 100.0000 | 99.9337 | 3 | 0 | 3 | 0 | 0 | ||
| ckim-gatk | INDEL | * | func_cds | * | 99.3314 | 99.7753 | 98.8914 | 54.2132 | 444 | 1 | 446 | 5 | 1 | 20.0000 | |
| ckim-gatk | INDEL | * | func_cds | het | 99.0826 | 100.0000 | 98.1818 | 63.4551 | 214 | 0 | 216 | 4 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | func_cds | hetalt | 88.8889 | 80.0000 | 100.0000 | 50.0000 | 4 | 1 | 4 | 0 | 0 | ||
| ckim-gatk | INDEL | * | func_cds | homalt | 99.7792 | 100.0000 | 99.5595 | 39.4667 | 226 | 0 | 226 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7342 | 93.9641 | 95.5170 | 68.9673 | 9465 | 608 | 9311 | 437 | 395 | 90.3890 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4384 | 96.9802 | 93.9449 | 79.5374 | 3918 | 122 | 3615 | 233 | 194 | 83.2618 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.2704 | 87.7615 | 99.5173 | 36.9269 | 3356 | 468 | 3505 | 17 | 17 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5308 | 99.1852 | 92.1362 | 66.1398 | 2191 | 18 | 2191 | 187 | 184 | 98.3957 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 95.0000 | 95.0000 | 95.0000 | 99.3932 | 19 | 1 | 19 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 99.4426 | 12 | 0 | 12 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 95.3846 | 3 | 0 | 3 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 80.0000 | 80.0000 | 80.0000 | 99.5362 | 4 | 1 | 4 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9696 | 98.6829 | 99.2581 | 73.7654 | 93205 | 1244 | 93112 | 696 | 583 | 83.7644 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4089 | 99.5877 | 99.2308 | 76.0442 | 48072 | 199 | 47859 | 371 | 265 | 71.4286 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.4056 | 93.3839 | 99.6294 | 58.1642 | 14397 | 1020 | 14517 | 54 | 54 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5208 | 99.9187 | 99.1260 | 74.4622 | 30736 | 25 | 30736 | 271 | 264 | 97.4170 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0533 | 97.6374 | 98.4728 | 67.8136 | 63807 | 1544 | 63576 | 986 | 844 | 85.5984 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6351 | 98.9928 | 98.2801 | 74.5158 | 30173 | 307 | 29714 | 520 | 391 | 75.1923 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.1399 | 92.8943 | 99.6204 | 36.5756 | 15518 | 1187 | 15746 | 60 | 60 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7571 | 99.7248 | 97.8080 | 67.5218 | 18116 | 50 | 18116 | 406 | 393 | 96.7980 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6681 | 97.1707 | 98.1707 | 76.7832 | 2095 | 61 | 2093 | 39 | 20 | 51.2821 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8445 | 97.7707 | 97.9183 | 79.2041 | 1228 | 28 | 1223 | 26 | 7 | 26.9231 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.4918 | 82.6347 | 100.0000 | 64.3038 | 138 | 29 | 141 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8475 | 99.4543 | 98.2480 | 73.3285 | 729 | 4 | 729 | 13 | 13 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 94.1176 | 94.1176 | 94.1176 | 99.4642 | 16 | 1 | 16 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 99.5157 | 10 | 0 | 10 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 94.5455 | 3 | 0 | 3 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 75.0000 | 75.0000 | 75.0000 | 99.6201 | 3 | 1 | 3 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4326 | 99.2967 | 99.5689 | 75.2558 | 5083 | 36 | 5081 | 22 | 10 | 45.4545 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5663 | 99.6000 | 99.5327 | 76.7518 | 2988 | 12 | 2982 | 14 | 4 | 28.5714 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.8354 | 90.5579 | 99.5370 | 73.1009 | 211 | 22 | 215 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7617 | 99.8940 | 99.6298 | 72.7247 | 1884 | 2 | 1884 | 7 | 5 | 71.4286 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7100 | 99.6412 | 99.7789 | 75.9521 | 3610 | 13 | 3610 | 8 | 3 | 37.5000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8597 | 99.9065 | 99.8129 | 76.8740 | 2136 | 2 | 2134 | 4 | 1 | 25.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.2817 | 91.6667 | 99.1935 | 77.0370 | 121 | 11 | 123 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8893 | 100.0000 | 99.7788 | 74.2205 | 1353 | 0 | 1353 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.6969 | 92.8325 | 94.5775 | 63.9536 | 5647 | 436 | 5529 | 317 | 301 | 94.9527 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.4040 | 96.4646 | 92.4295 | 77.5992 | 2101 | 77 | 1868 | 153 | 139 | 90.8497 | |