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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2601-2650 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 72.0736 | 97.5227 | 57.1579 | 53.3629 | 1614 | 41 | 1625 | 1218 | 1207 | 99.0969 | |
| jpowers-varprowl | SNP | * | map_l100_m2_e0 | * | 98.0473 | 97.7530 | 98.3434 | 71.6108 | 72302 | 1662 | 72304 | 1218 | 332 | 27.2578 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.4197 | 94.8503 | 98.0420 | 61.5230 | 61113 | 3318 | 60987 | 1218 | 972 | 79.8030 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 57.1877 | 67.4267 | 49.6483 | 70.3545 | 1242 | 600 | 1200 | 1217 | 171 | 14.0509 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | homalt | 27.7922 | 86.5979 | 16.5522 | 77.7097 | 252 | 39 | 241 | 1215 | 1169 | 96.2140 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 80.5645 | 99.0173 | 67.9091 | 64.2303 | 2519 | 25 | 2569 | 1214 | 25 | 2.0593 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 67.4387 | 82.0937 | 57.2234 | 62.0538 | 1788 | 390 | 1624 | 1214 | 1194 | 98.3526 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 66.5492 | 86.1631 | 54.2091 | 50.6979 | 1426 | 229 | 1436 | 1213 | 1206 | 99.4229 | |
| mlin-fermikit | SNP | ti | map_l150_m1_e0 | homalt | 60.2226 | 50.2115 | 75.2198 | 56.9340 | 3679 | 3648 | 3679 | 1212 | 1145 | 94.4719 | |
| anovak-vg | INDEL | I6_15 | HG002compoundhet | het | 35.5369 | 25.4808 | 58.7053 | 30.0691 | 53 | 155 | 1723 | 1212 | 975 | 80.4455 | |
| gduggal-snapfb | INDEL | D6_15 | HG002compoundhet | * | 72.3856 | 63.3263 | 84.4695 | 30.0529 | 5719 | 3312 | 6592 | 1212 | 1198 | 98.8449 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 30.5317 | 23.4920 | 43.5957 | 47.5189 | 923 | 3006 | 936 | 1211 | 1021 | 84.3105 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.5569 | 94.9365 | 90.2936 | 47.5778 | 11887 | 634 | 11256 | 1210 | 1034 | 85.4545 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.9005 | 92.0300 | 93.7875 | 53.5986 | 18279 | 1583 | 18267 | 1210 | 1145 | 94.6281 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | homalt | 53.1056 | 99.7085 | 36.1905 | 83.1205 | 684 | 2 | 684 | 1206 | 1203 | 99.7512 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.7864 | 97.0356 | 87.0760 | 55.5089 | 8118 | 248 | 8112 | 1204 | 1184 | 98.3389 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 41.5098 | 33.5081 | 54.5317 | 83.3700 | 1214 | 2409 | 1444 | 1204 | 29 | 2.4086 | |
| jpowers-varprowl | SNP | ti | HG002compoundhet | homalt | 92.3856 | 99.8107 | 85.9888 | 37.4563 | 7380 | 14 | 7383 | 1203 | 882 | 73.3167 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8701 | 97.6006 | 98.1411 | 68.2416 | 63783 | 1568 | 63513 | 1203 | 1069 | 88.8612 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8701 | 97.6006 | 98.1411 | 68.2416 | 63783 | 1568 | 63513 | 1203 | 1069 | 88.8612 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 75.6587 | 80.6700 | 71.2335 | 62.4381 | 3034 | 727 | 2974 | 1201 | 1094 | 91.0908 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 75.6587 | 80.6700 | 71.2335 | 62.4381 | 3034 | 727 | 2974 | 1201 | 1094 | 91.0908 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | * | 77.9452 | 82.2472 | 74.0709 | 86.1595 | 3433 | 741 | 3428 | 1200 | 357 | 29.7500 | |
| egarrison-hhga | SNP | * | * | * | 99.8985 | 99.8365 | 99.9607 | 18.3304 | 3049624 | 4995 | 3049677 | 1199 | 305 | 25.4379 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.3996 | 88.8382 | 59.6839 | 72.7955 | 1751 | 220 | 1775 | 1199 | 1169 | 97.4979 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.3996 | 88.8382 | 59.6839 | 72.7955 | 1751 | 220 | 1775 | 1199 | 1169 | 97.4979 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | * | 86.9758 | 95.2325 | 80.0366 | 91.7380 | 4834 | 242 | 4807 | 1199 | 73 | 6.0884 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 78.4461 | 79.6640 | 77.2650 | 73.1213 | 4078 | 1041 | 4068 | 1197 | 480 | 40.1003 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.3348 | 92.1922 | 81.1772 | 59.7644 | 5160 | 437 | 5158 | 1196 | 1175 | 98.2441 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6704 | 98.1255 | 97.2195 | 71.9856 | 32613 | 623 | 41783 | 1195 | 869 | 72.7197 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | * | 86.8868 | 95.2476 | 79.8754 | 91.6627 | 4770 | 238 | 4743 | 1195 | 72 | 6.0251 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 77.1877 | 70.6598 | 85.0445 | 46.2575 | 6683 | 2775 | 6784 | 1193 | 1020 | 85.4987 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | het | 76.3189 | 87.6187 | 67.6007 | 87.1885 | 2491 | 352 | 2485 | 1191 | 350 | 29.3871 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.0705 | 92.7235 | 83.8622 | 38.1946 | 6193 | 486 | 6184 | 1190 | 1162 | 97.6471 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | * | 66.6908 | 61.3353 | 73.0708 | 52.3301 | 3252 | 2050 | 3229 | 1190 | 878 | 73.7815 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | het | 82.7367 | 96.1200 | 72.6248 | 92.6041 | 3171 | 128 | 3157 | 1190 | 66 | 5.5462 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 63.2704 | 73.8711 | 55.3303 | 67.2928 | 1456 | 515 | 1474 | 1190 | 1180 | 99.1597 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 63.2704 | 73.8711 | 55.3303 | 67.2928 | 1456 | 515 | 1474 | 1190 | 1180 | 99.1597 | |
| hfeng-pmm1 | INDEL | * | * | * | 99.3397 | 99.0289 | 99.6526 | 57.3618 | 341196 | 3346 | 341057 | 1189 | 887 | 74.6005 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | het | 82.6056 | 96.1278 | 72.4186 | 92.5288 | 3128 | 126 | 3114 | 1186 | 65 | 5.4806 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 81.2482 | 70.2896 | 96.2549 | 70.8872 | 30460 | 12875 | 30456 | 1185 | 636 | 53.6709 | |
| jpowers-varprowl | INDEL | D1_5 | HG002complexvar | het | 95.6155 | 96.8360 | 94.4254 | 57.0236 | 20108 | 657 | 20072 | 1185 | 1127 | 95.1055 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 66.2377 | 71.5690 | 61.6456 | 93.1383 | 1893 | 752 | 1903 | 1184 | 39 | 3.2939 | |
| jlack-gatk | SNP | tv | map_l100_m0_e0 | * | 94.2911 | 98.7279 | 90.2359 | 79.7630 | 10943 | 141 | 10942 | 1184 | 68 | 5.7432 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 58.2911 | 54.3260 | 62.8805 | 55.6252 | 2003 | 1684 | 2004 | 1183 | 1139 | 96.2806 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 72.6802 | 97.7039 | 57.8610 | 56.5116 | 1617 | 38 | 1623 | 1182 | 1138 | 96.2775 | |
| hfeng-pmm2 | SNP | * | * | het | 99.9111 | 99.8854 | 99.9369 | 19.2150 | 1871439 | 2148 | 1871315 | 1181 | 42 | 3.5563 | |
| jli-custom | SNP | ti | * | * | 99.9536 | 99.9637 | 99.9435 | 16.8976 | 2084755 | 756 | 2084716 | 1179 | 130 | 11.0263 | |
| gduggal-bwafb | INDEL | * | HG002complexvar | * | 96.4189 | 94.4813 | 98.4377 | 54.9407 | 72692 | 4246 | 74289 | 1179 | 1015 | 86.0899 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.8870 | 94.9500 | 92.8476 | 48.1847 | 7972 | 424 | 15305 | 1179 | 918 | 77.8626 | |