PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19151-19200 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | D6_15 | * | homalt | 98.8810 | 99.8735 | 97.9079 | 55.6525 | 6318 | 8 | 6318 | 135 | 132 | 97.7778 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | * | 98.1151 | 97.6990 | 98.5347 | 58.5306 | 5180 | 122 | 5178 | 77 | 70 | 90.9091 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | het | 99.0142 | 98.9423 | 99.0862 | 59.4709 | 3087 | 33 | 3036 | 28 | 22 | 78.5714 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 93.7593 | 91.3129 | 96.3403 | 47.3985 | 925 | 88 | 974 | 37 | 37 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4466 | 99.9145 | 98.9831 | 63.0094 | 1168 | 1 | 1168 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.5310 | 94.8178 | 96.2551 | 36.1757 | 8563 | 468 | 8559 | 333 | 330 | 99.0991 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | het | 90.0227 | 98.3645 | 82.9851 | 68.6916 | 842 | 14 | 834 | 171 | 169 | 98.8304 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | hetalt | 96.9335 | 94.4301 | 99.5733 | 24.1244 | 7697 | 454 | 7701 | 33 | 33 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 27.1186 | 100.0000 | 15.6863 | 71.0775 | 24 | 0 | 24 | 129 | 128 | 99.2248 | |
| ckim-gatk | INDEL | D6_15 | decoy | * | 66.6667 | 100.0000 | 50.0000 | 99.9108 | 1 | 0 | 1 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D6_15 | decoy | het | 0.0000 | 0.0000 | 99.9461 | 0 | 0 | 0 | 1 | 0 | 0.0000 | ||
| ckim-gatk | INDEL | D6_15 | decoy | hetalt | 100.0000 | 100.0000 | 100.0000 | 99.2647 | 1 | 0 | 1 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | decoy | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| ckim-gatk | INDEL | D6_15 | func_cds | * | 100.0000 | 100.0000 | 100.0000 | 56.5657 | 43 | 0 | 43 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 53.9683 | 29 | 0 | 29 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 60.0000 | 2 | 0 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | func_cds | homalt | 100.0000 | 100.0000 | 100.0000 | 61.2903 | 12 | 0 | 12 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7734 | 92.6190 | 94.9569 | 54.7101 | 3639 | 290 | 3634 | 193 | 182 | 94.3005 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1591 | 97.0864 | 89.5372 | 74.7588 | 933 | 28 | 890 | 104 | 94 | 90.3846 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.9827 | 89.0533 | 99.4898 | 29.9773 | 2107 | 259 | 2145 | 11 | 11 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.6669 | 99.5017 | 88.4786 | 52.7565 | 599 | 3 | 599 | 78 | 77 | 98.7179 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 100.0000 | 100.0000 | 100.0000 | 97.1831 | 6 | 0 | 6 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 97.8873 | 3 | 0 | 3 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 89.4737 | 2 | 0 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 98.0769 | 1 | 0 | 1 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3167 | 98.0869 | 98.5475 | 60.4971 | 15740 | 307 | 15741 | 232 | 216 | 93.1034 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.6238 | 99.4640 | 97.7977 | 72.6194 | 5567 | 30 | 5551 | 125 | 111 | 88.8000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7140 | 95.9777 | 99.5142 | 33.0521 | 6538 | 274 | 6555 | 32 | 32 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9385 | 99.9175 | 97.9784 | 62.3961 | 3635 | 3 | 3635 | 75 | 73 | 97.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.5160 | 97.0969 | 97.9388 | 58.0884 | 17158 | 513 | 17153 | 361 | 342 | 94.7368 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.9393 | 99.0763 | 96.8281 | 71.9883 | 5792 | 54 | 5739 | 188 | 172 | 91.4894 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8615 | 94.3541 | 99.5059 | 29.2939 | 7604 | 455 | 7652 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.1861 | 99.8938 | 96.5358 | 60.0431 | 3762 | 4 | 3762 | 135 | 132 | 97.7778 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3494 | 96.6507 | 98.0583 | 77.4370 | 202 | 7 | 202 | 4 | 3 | 75.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 80.0633 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 96.0000 | 92.3077 | 100.0000 | 56.6265 | 36 | 3 | 36 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8506 | 100.0000 | 97.7273 | 77.7778 | 43 | 0 | 43 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 100.0000 | 100.0000 | 100.0000 | 97.8723 | 4 | 0 | 4 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 98.4252 | 2 | 0 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 84.6154 | 2 | 0 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5517 | 99.4030 | 99.7009 | 66.4548 | 999 | 6 | 1000 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 70.1454 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.3442 | 92.7273 | 98.1132 | 61.5942 | 51 | 4 | 52 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8665 | 100.0000 | 99.7333 | 59.5032 | 374 | 0 | 374 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5944 | 99.5365 | 99.6524 | 64.2502 | 859 | 4 | 860 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8974 | 100.0000 | 99.7951 | 68.0419 | 487 | 0 | 487 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 92.1122 | 87.8788 | 96.7742 | 62.1951 | 29 | 4 | 30 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 57.2671 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1008 | 91.8360 | 94.4009 | 50.5628 | 2531 | 225 | 2529 | 150 | 146 | 97.3333 | |