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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53051-53100 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | ti | tech_badpromoters | homalt | 98.7952 | 100.0000 | 97.6190 | 41.6667 | 41 | 0 | 41 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 53.3333 | 92.3077 | 37.5000 | 79.6178 | 12 | 1 | 12 | 20 | 1 | 5.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0067 | 98.2249 | 99.8012 | 86.1050 | 498 | 9 | 502 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0342 | 98.2942 | 99.7854 | 85.3275 | 461 | 8 | 465 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.5646 | 99.1989 | 99.9329 | 79.3662 | 1486 | 12 | 1490 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4598 | 98.9813 | 99.9429 | 61.0494 | 1749 | 18 | 1751 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 76.9231 | 100.0000 | 62.5000 | 60.0000 | 5 | 0 | 5 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | map_l100_m0_e0 | * | 43.7760 | 28.0314 | 99.8714 | 92.3134 | 3107 | 7977 | 3107 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | SNP | tv | map_l100_m0_e0 | het | 46.8906 | 30.6425 | 99.8196 | 93.3017 | 2213 | 5009 | 2213 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | SNP | tv | map_l125_m0_e0 | * | 34.3571 | 20.7510 | 99.7825 | 95.7011 | 1376 | 5255 | 1376 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | map_l125_m0_e0 | het | 37.0699 | 22.7676 | 99.7015 | 96.2071 | 1002 | 3399 | 1002 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | map_l125_m1_e0 | * | 45.0440 | 29.0834 | 99.8285 | 92.0394 | 4658 | 11358 | 4657 | 8 | 1 | 12.5000 | |
| asubramanian-gatk | SNP | tv | map_l125_m1_e0 | het | 48.5238 | 32.0561 | 99.7847 | 92.9805 | 3246 | 6880 | 3245 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | tv | map_l150_m0_e0 | * | 29.8574 | 17.5611 | 99.5924 | 97.2219 | 733 | 3441 | 733 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | map_l150_m0_e0 | het | 32.4897 | 19.4161 | 99.4595 | 97.4792 | 552 | 2291 | 552 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | map_l150_m1_e0 | * | 37.4814 | 23.0755 | 99.7622 | 94.8394 | 2518 | 8394 | 2517 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | SNP | tv | map_l150_m1_e0 | het | 40.8243 | 25.6695 | 99.6644 | 95.4254 | 1783 | 5163 | 1782 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e0 | * | 39.2587 | 24.4386 | 99.7483 | 94.9137 | 2775 | 8580 | 2774 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e0 | het | 42.5209 | 27.0270 | 99.6439 | 95.4728 | 1960 | 5292 | 1959 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e1 | * | 39.5063 | 24.6305 | 99.7534 | 94.8804 | 2833 | 8669 | 2832 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e1 | het | 42.7242 | 27.1911 | 99.6507 | 95.4527 | 1998 | 5350 | 1997 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | tv | tech_badpromoters | * | 97.9021 | 97.2222 | 98.5915 | 53.5948 | 70 | 2 | 70 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 51.2500 | 38 | 1 | 38 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | func_cds | * | 99.5531 | 99.7753 | 99.3318 | 44.7724 | 444 | 1 | 446 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | * | func_cds | homalt | 99.7792 | 100.0000 | 99.5595 | 38.4824 | 226 | 0 | 226 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.8203 | 96.1373 | 99.5633 | 75.6642 | 224 | 9 | 228 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8363 | 99.9065 | 99.7662 | 76.2965 | 2136 | 2 | 2134 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.6981 | 96.2121 | 99.2308 | 79.2000 | 127 | 5 | 129 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7400 | 99.6173 | 99.8629 | 52.8317 | 3644 | 14 | 3643 | 5 | 1 | 20.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5654 | 99.2416 | 99.8913 | 28.9575 | 916 | 7 | 919 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m0_e0 | het | 96.6744 | 97.6540 | 95.7143 | 93.1170 | 333 | 8 | 335 | 15 | 1 | 6.6667 | |
| bgallagher-sentieon | INDEL | * | map_l250_m0_e0 | het | 88.4956 | 94.3396 | 83.3333 | 97.8198 | 50 | 3 | 50 | 10 | 1 | 10.0000 | |
| bgallagher-sentieon | INDEL | * | map_l250_m0_e0 | homalt | 94.1176 | 96.0000 | 92.3077 | 97.4206 | 24 | 1 | 24 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.2777 | 97.5124 | 95.0739 | 88.5181 | 196 | 5 | 193 | 10 | 1 | 10.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5591 | 99.4186 | 97.7143 | 81.0401 | 171 | 1 | 171 | 4 | 1 | 25.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3337 | 99.5146 | 99.1536 | 70.9926 | 820 | 4 | 820 | 7 | 1 | 14.2857 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7238 | 100.0000 | 99.4490 | 62.9592 | 361 | 0 | 361 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 92.1775 | 85.6492 | 99.7831 | 34.9788 | 376 | 63 | 460 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2382 | 99.0025 | 99.4751 | 81.5138 | 397 | 4 | 379 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 77.4194 | 75.0000 | 80.0000 | 92.3077 | 6 | 2 | 4 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.2963 | 100.0000 | 92.8571 | 50.0000 | 13 | 0 | 13 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.2603 | 95.9459 | 98.6111 | 80.4878 | 71 | 3 | 71 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7250 | 99.6337 | 99.8165 | 77.9173 | 544 | 2 | 544 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8590 | 99.9059 | 99.8120 | 81.1281 | 1062 | 1 | 1062 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.2973 | 97.2973 | 97.2973 | 87.0175 | 36 | 1 | 36 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 78.9725 | 65.3768 | 99.7076 | 29.3388 | 321 | 170 | 341 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8773 | 99.8283 | 99.9264 | 43.4517 | 4070 | 7 | 4073 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.6750 | 99.5671 | 99.7831 | 28.3048 | 460 | 2 | 460 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 92.8571 | 100.0000 | 86.6667 | 86.6071 | 13 | 0 | 13 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m0_e0 | het | 97.4343 | 98.8406 | 96.0674 | 89.1958 | 341 | 4 | 342 | 14 | 1 | 7.1429 | |