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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8501-8550 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0981 | 96.8525 | 99.3761 | 51.0664 | 13324 | 433 | 22937 | 144 | 122 | 84.7222 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0981 | 96.8525 | 99.3761 | 51.0664 | 13324 | 433 | 22937 | 144 | 122 | 84.7222 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 69.3130 | 73.8369 | 65.3114 | 41.5571 | 1222 | 433 | 1510 | 802 | 609 | 75.9352 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e0 | * | 99.2517 | 99.0733 | 99.4307 | 70.7955 | 46290 | 433 | 46284 | 265 | 170 | 64.1509 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.7965 | 98.4954 | 99.0994 | 71.1241 | 28280 | 432 | 28279 | 257 | 56 | 21.7899 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.7965 | 98.4954 | 99.0994 | 71.1241 | 28280 | 432 | 28279 | 257 | 56 | 21.7899 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 1.7852 | 0.9174 | 32.9730 | 66.4247 | 4 | 432 | 122 | 248 | 94 | 37.9032 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e0 | * | 94.6894 | 94.5212 | 94.8581 | 89.8978 | 7453 | 432 | 7453 | 404 | 182 | 45.0495 | |
| gduggal-bwafb | SNP | tv | HG002complexvar | het | 99.7366 | 99.7134 | 99.7598 | 23.4830 | 150302 | 432 | 150365 | 362 | 122 | 33.7017 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 3.1212 | 1.5945 | 73.3333 | 80.5195 | 7 | 432 | 11 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 64.8475 | 48.3254 | 98.5366 | 81.1754 | 404 | 432 | 404 | 6 | 3 | 50.0000 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m1_e0 | het | 98.1622 | 96.5077 | 99.8745 | 59.1812 | 11938 | 432 | 11940 | 15 | 1 | 6.6667 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.7409 | 93.7237 | 97.8469 | 79.8823 | 6451 | 432 | 6453 | 142 | 16 | 11.2676 | |
| astatham-gatk | INDEL | D6_15 | HG002compoundhet | * | 95.7191 | 95.2165 | 96.2270 | 36.2319 | 8599 | 432 | 8595 | 337 | 334 | 99.1098 | |
| cchapple-custom | SNP | tv | map_l125_m1_e0 | * | 96.5512 | 97.3027 | 95.8113 | 74.0329 | 15584 | 432 | 15577 | 681 | 116 | 17.0338 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.8325 | 89.0303 | 94.8168 | 50.9778 | 3498 | 431 | 3494 | 191 | 186 | 97.3822 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 23.7011 | 34.8943 | 17.9449 | 88.9091 | 231 | 431 | 241 | 1102 | 10 | 0.9074 | |
| ndellapenna-hhga | SNP | ti | map_l125_m2_e1 | * | 99.2034 | 98.5901 | 99.8245 | 69.6481 | 30138 | 431 | 30138 | 53 | 27 | 50.9434 | |
| gduggal-bwafb | SNP | * | map_l150_m1_e0 | * | 98.6339 | 98.5952 | 98.6726 | 76.5153 | 30179 | 430 | 30179 | 406 | 107 | 26.3547 | |
| egarrison-hhga | SNP | * | map_l125_m2_e1 | * | 99.4493 | 99.0890 | 99.8122 | 70.5609 | 46772 | 430 | 46772 | 88 | 41 | 46.5909 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.2182 | 92.7585 | 99.9459 | 61.2554 | 5508 | 430 | 5546 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 55.8285 | 72.0960 | 45.5506 | 48.7100 | 1111 | 430 | 3450 | 4124 | 3618 | 87.7304 | |
| anovak-vg | INDEL | * | map_l125_m2_e0 | het | 71.0853 | 69.0870 | 73.2026 | 89.4523 | 961 | 430 | 1008 | 369 | 100 | 27.1003 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4371 | 99.0591 | 97.8229 | 71.0281 | 45272 | 430 | 45697 | 1017 | 32 | 3.1465 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4371 | 99.0591 | 97.8229 | 71.0281 | 45272 | 430 | 45697 | 1017 | 32 | 3.1465 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 80.1588 | 67.7444 | 98.1441 | 38.0663 | 901 | 429 | 899 | 17 | 16 | 94.1176 | |
| rpoplin-dv42 | SNP | tv | * | het | 99.9398 | 99.9275 | 99.9522 | 22.4174 | 591267 | 429 | 591187 | 283 | 104 | 36.7491 | |
| gduggal-bwafb | SNP | ti | map_l100_m1_e0 | * | 99.1029 | 99.1050 | 99.1009 | 66.4175 | 47502 | 429 | 47504 | 431 | 106 | 24.5940 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 40.5494 | 35.4887 | 47.2934 | 60.0683 | 236 | 429 | 332 | 370 | 282 | 76.2162 | |
| cchapple-custom | SNP | * | map_l100_m0_e0 | homalt | 98.1150 | 96.3081 | 99.9911 | 57.3704 | 11191 | 429 | 11188 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 80.1595 | 67.7444 | 98.1461 | 38.4977 | 901 | 429 | 900 | 17 | 15 | 88.2353 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e1 | het | 95.8577 | 96.7115 | 95.0189 | 76.5004 | 12587 | 428 | 12590 | 660 | 337 | 51.0606 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | homalt | 74.1849 | 64.7446 | 86.8481 | 42.3529 | 786 | 428 | 766 | 116 | 108 | 93.1034 | |
| rpoplin-dv42 | SNP | * | map_l125_m1_e0 | * | 99.2363 | 99.0558 | 99.4176 | 68.8661 | 44899 | 428 | 44893 | 263 | 168 | 63.8783 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9719 | 93.8052 | 98.2411 | 42.7766 | 6481 | 428 | 6479 | 116 | 88 | 75.8621 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2273 | 98.7916 | 99.6668 | 58.8530 | 34991 | 428 | 34997 | 117 | 50 | 42.7350 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | het | 98.9178 | 97.9388 | 99.9165 | 54.1519 | 20337 | 428 | 20340 | 17 | 9 | 52.9412 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4414 | 79.6287 | 92.1694 | 54.6077 | 1673 | 428 | 1589 | 135 | 130 | 96.2963 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.2425 | 97.6560 | 98.8360 | 46.5565 | 17831 | 428 | 17832 | 210 | 208 | 99.0476 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3332 | 97.2524 | 99.4383 | 69.4992 | 15149 | 428 | 15226 | 86 | 78 | 90.6977 | |
| ckim-isaac | INDEL | * | map_l125_m1_e0 | het | 80.3728 | 67.9401 | 98.3749 | 89.2349 | 907 | 428 | 908 | 15 | 5 | 33.3333 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 49.6249 | 35.0531 | 84.9315 | 68.9362 | 231 | 428 | 62 | 11 | 11 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 49.6249 | 35.0531 | 84.9315 | 68.9362 | 231 | 428 | 62 | 11 | 11 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | HG002compoundhet | homalt | 96.4038 | 94.2115 | 98.7006 | 34.6979 | 6966 | 428 | 6912 | 91 | 82 | 90.1099 | |
| gduggal-bwavard | SNP | ti | map_l125_m1_e0 | het | 94.5411 | 97.6568 | 91.6179 | 81.9499 | 17838 | 428 | 17707 | 1620 | 106 | 6.5432 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.6349 | 65.9236 | 65.3487 | 72.3679 | 828 | 428 | 909 | 482 | 71 | 14.7303 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 27.7333 | 20.3358 | 43.5897 | 65.7895 | 109 | 427 | 102 | 132 | 121 | 91.6667 | |
| eyeh-varpipe | INDEL | I6_15 | HG002complexvar | het | 83.9009 | 81.8684 | 86.0369 | 46.7354 | 1928 | 427 | 1867 | 303 | 298 | 98.3498 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.2247 | 98.6289 | 99.8277 | 67.0916 | 30716 | 427 | 30716 | 53 | 3 | 5.6604 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.2247 | 98.6289 | 99.8277 | 67.0916 | 30716 | 427 | 30716 | 53 | 3 | 5.6604 | |