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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76351-76400 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 25.0000 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 80.9524 | 0 | 0 | 0 | 16 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 80.2410 | 0 | 0 | 0 | 82 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 83.9869 | 0 | 0 | 0 | 49 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 75.0000 | 0 | 0 | 0 | 2 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.3069 | 0 | 0 | 0 | 31 | 0 | 0.0000 | ||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0231 | 98.3067 | 99.7501 | 65.5325 | 3193 | 55 | 3193 | 8 | 6 | 75.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.7032 | 97.7767 | 99.6475 | 68.5461 | 1979 | 45 | 1979 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5490 | 99.1830 | 99.9177 | 59.0909 | 1214 | 10 | 1214 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.8573 | 92.4054 | 93.3136 | 74.7428 | 9308 | 765 | 9462 | 678 | 457 | 67.4041 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.4006 | 94.8267 | 92.0168 | 79.6069 | 3831 | 209 | 3723 | 323 | 189 | 58.5139 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.1790 | 86.6893 | 98.4109 | 40.6421 | 3315 | 509 | 3530 | 57 | 49 | 85.9649 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.7368 | 97.8723 | 88.1133 | 66.0895 | 2162 | 47 | 2209 | 298 | 219 | 73.4899 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0947 | 93.5620 | 94.6334 | 73.4309 | 1991 | 137 | 1975 | 112 | 96 | 85.7143 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.3763 | 96.3910 | 88.6827 | 87.4183 | 641 | 24 | 478 | 61 | 53 | 86.8852 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.6398 | 90.0513 | 97.5262 | 40.9551 | 878 | 97 | 1025 | 26 | 22 | 84.6154 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8376 | 96.7213 | 94.9698 | 72.2501 | 472 | 16 | 472 | 25 | 21 | 84.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1039 | 98.4828 | 99.7328 | 68.8838 | 1493 | 23 | 1493 | 4 | 1 | 25.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6775 | 97.7823 | 99.5893 | 70.8819 | 970 | 22 | 970 | 4 | 1 | 25.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.9045 | 99.8092 | 100.0000 | 64.2026 | 523 | 1 | 523 | 0 | 0 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 86.3333 | 0 | 0 | 0 | 41 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 88.3408 | 0 | 0 | 0 | 26 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 83.3333 | 0 | 0 | 0 | 1 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 80.2817 | 0 | 0 | 0 | 14 | 0 | 0.0000 | ||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 39.1152 | 33.2790 | 47.4335 | 60.0049 | 613 | 1229 | 767 | 850 | 647 | 76.1176 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 43.1111 | 37.0091 | 51.6227 | 61.5894 | 245 | 417 | 509 | 477 | 324 | 67.9245 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 16.9454 | 0.0000 | 0.0000 | 152 | 745 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 53.2492 | 76.3251 | 40.8875 | 57.2493 | 216 | 67 | 258 | 373 | 323 | 86.5952 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9849 | 94.4009 | 95.5762 | 69.0899 | 9509 | 564 | 9355 | 433 | 393 | 90.7621 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4126 | 96.9059 | 93.9646 | 79.4691 | 3915 | 125 | 3612 | 232 | 195 | 84.0517 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.9775 | 89.0167 | 99.5238 | 40.0705 | 3404 | 420 | 3553 | 17 | 17 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5706 | 99.1399 | 92.2494 | 66.0177 | 2190 | 19 | 2190 | 184 | 181 | 98.3696 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.3470 | 92.5462 | 90.1786 | 71.2135 | 1403 | 113 | 1414 | 154 | 61 | 39.6104 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 89.1362 | 91.0282 | 87.3213 | 73.7422 | 903 | 89 | 916 | 133 | 46 | 34.5865 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6861 | 95.4198 | 95.9538 | 64.2562 | 500 | 24 | 498 | 21 | 15 | 71.4286 | |
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.1744 | 93.3669 | 91.0119 | 70.2375 | 4448 | 316 | 4506 | 445 | 188 | 42.2472 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 90.2601 | 92.3740 | 88.2408 | 73.6079 | 2786 | 230 | 2844 | 379 | 139 | 36.6755 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6272 | 95.0801 | 96.1806 | 60.9315 | 1662 | 86 | 1662 | 66 | 49 | 74.2424 | |