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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18951-19000 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 25.3353 | 0.0000 | 0.0000 | 1209 | 3563 | 0 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | map_siren | homalt | 99.6298 | 99.7525 | 99.5074 | 78.6951 | 1209 | 3 | 1212 | 6 | 4 | 66.6667 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.9916 | 95.5731 | 98.4528 | 83.7652 | 1209 | 56 | 1209 | 19 | 11 | 57.8947 | |
| ckim-dragen | INDEL | * | map_l100_m1_e0 | homalt | 98.5318 | 98.5330 | 98.5306 | 83.5835 | 1209 | 18 | 1207 | 18 | 10 | 55.5556 | |
| hfeng-pmm2 | INDEL | I1_5 | map_siren | homalt | 99.6707 | 99.7525 | 99.5892 | 76.9508 | 1209 | 3 | 1212 | 5 | 4 | 80.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.6576 | 91.5216 | 95.8958 | 60.2572 | 1209 | 112 | 1215 | 52 | 40 | 76.9231 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.1539 | 96.1783 | 98.1494 | 73.9632 | 1208 | 48 | 1485 | 28 | 21 | 75.0000 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e0 | * | 90.1581 | 85.7955 | 94.9883 | 97.8029 | 1208 | 200 | 1213 | 64 | 7 | 10.9375 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.2899 | 99.4234 | 97.1820 | 55.6903 | 1207 | 7 | 1207 | 35 | 34 | 97.1429 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.6963 | 66.2459 | 100.0000 | 93.7500 | 1207 | 615 | 1 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l100_m1_e0 | homalt | 98.5306 | 98.3700 | 98.6917 | 82.5435 | 1207 | 20 | 1207 | 16 | 9 | 56.2500 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.9873 | 91.5781 | 96.5267 | 61.0569 | 1207 | 111 | 1195 | 43 | 42 | 97.6744 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8239 | 96.0191 | 97.6423 | 76.7662 | 1206 | 50 | 1201 | 29 | 6 | 20.6897 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.4085 | 98.5294 | 87.0036 | 79.8311 | 1206 | 18 | 1205 | 180 | 12 | 6.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | map_siren | homalt | 99.6286 | 99.5050 | 99.7525 | 77.1148 | 1206 | 6 | 1209 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | homalt | 99.5850 | 99.5050 | 99.6653 | 76.7645 | 1206 | 6 | 1191 | 4 | 2 | 50.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_siren | homalt | 99.5465 | 99.5050 | 99.5881 | 78.6343 | 1206 | 6 | 1209 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.4407 | 85.5319 | 81.4493 | 59.0504 | 1206 | 204 | 1124 | 256 | 208 | 81.2500 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 67.1562 | 50.9721 | 98.3986 | 41.3667 | 1206 | 1160 | 1106 | 18 | 15 | 83.3333 | |
| ckim-gatk | INDEL | I1_5 | map_siren | homalt | 99.5056 | 99.5050 | 99.5062 | 78.6204 | 1206 | 6 | 1209 | 6 | 4 | 66.6667 | |
| cchapple-custom | INDEL | I6_15 | HG002complexvar | homalt | 98.1176 | 99.2586 | 97.0025 | 48.4991 | 1205 | 9 | 1165 | 36 | 35 | 97.2222 | |
| rpoplin-dv42 | INDEL | I1_5 | map_siren | homalt | 99.5047 | 99.4224 | 99.5871 | 77.9738 | 1205 | 7 | 1206 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_siren | homalt | 99.3823 | 99.4224 | 99.3421 | 78.6217 | 1205 | 7 | 1208 | 8 | 5 | 62.5000 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.1770 | 98.4477 | 99.9171 | 58.7551 | 1205 | 19 | 1205 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.4386 | 95.2569 | 97.6499 | 83.7824 | 1205 | 60 | 1205 | 29 | 20 | 68.9655 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2925 | 95.9395 | 98.6842 | 76.0063 | 1205 | 51 | 1200 | 16 | 7 | 43.7500 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | homalt | 98.4879 | 98.2070 | 98.7705 | 81.8398 | 1205 | 22 | 1205 | 15 | 10 | 66.6667 | |
| egarrison-hhga | INDEL | I1_5 | map_siren | homalt | 99.3814 | 99.4224 | 99.3405 | 78.4317 | 1205 | 7 | 1205 | 8 | 4 | 50.0000 | |
| ckim-vqsr | SNP | tv | map_l250_m2_e0 | * | 58.5236 | 41.8112 | 97.4919 | 97.2532 | 1205 | 1677 | 1205 | 31 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | * | map_l100_m1_e0 | homalt | 98.5277 | 98.2070 | 98.8506 | 84.0137 | 1205 | 22 | 1204 | 14 | 12 | 85.7143 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.8081 | 34.5074 | 68.1144 | 30.9514 | 1205 | 2287 | 4548 | 2129 | 2118 | 99.4833 | |
| jmaeng-gatk | INDEL | I1_5 | map_siren | homalt | 99.5051 | 99.4224 | 99.5878 | 78.4891 | 1205 | 7 | 1208 | 5 | 4 | 80.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e0 | het | 94.5055 | 95.8599 | 93.1889 | 86.1907 | 1204 | 52 | 1204 | 88 | 61 | 69.3182 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.1359 | 92.9012 | 75.2282 | 88.8693 | 1204 | 92 | 1236 | 407 | 118 | 28.9926 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_siren | homalt | 99.5854 | 99.3399 | 99.8321 | 73.3974 | 1204 | 8 | 1189 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.4420 | 91.1431 | 95.8599 | 59.1279 | 1204 | 117 | 1204 | 52 | 39 | 75.0000 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8911 | 98.2843 | 86.2787 | 74.9189 | 1203 | 21 | 1201 | 191 | 49 | 25.6545 | |
| ndellapenna-hhga | INDEL | I1_5 | map_siren | homalt | 99.2574 | 99.2574 | 99.2574 | 77.6960 | 1203 | 9 | 1203 | 9 | 5 | 55.5556 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 66.9692 | 50.8453 | 98.0681 | 41.1478 | 1203 | 1163 | 1066 | 21 | 14 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m2_e1 | het | 97.1325 | 94.8738 | 99.5012 | 74.5666 | 1203 | 65 | 1197 | 6 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.0944 | 98.2843 | 99.9179 | 60.1440 | 1203 | 21 | 1217 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.2021 | 97.5649 | 98.8477 | 61.4163 | 1202 | 30 | 1201 | 14 | 12 | 85.7143 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.4659 | 95.6210 | 97.3258 | 79.6370 | 1201 | 55 | 1201 | 33 | 10 | 30.3030 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 61.9377 | 88.6347 | 47.6003 | 71.2150 | 1201 | 154 | 1210 | 1332 | 1313 | 98.5736 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | hetalt | 92.5788 | 88.8314 | 96.6563 | 72.4212 | 1201 | 151 | 1243 | 43 | 43 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 59.8779 | 85.1773 | 46.1658 | 67.0074 | 1201 | 209 | 1192 | 1390 | 1248 | 89.7842 | |
| ckim-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 92.5788 | 88.8314 | 96.6563 | 72.4212 | 1201 | 151 | 1243 | 43 | 43 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | map_siren | homalt | 99.2562 | 99.0924 | 99.4205 | 77.9401 | 1201 | 11 | 1201 | 7 | 5 | 71.4286 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.1189 | 97.4026 | 98.8458 | 61.2336 | 1200 | 32 | 1199 | 14 | 12 | 85.7143 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m1_e0 | het | 98.5653 | 99.2556 | 97.8845 | 84.2173 | 1200 | 9 | 1203 | 26 | 4 | 15.3846 | |