PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
63301-63350 / 86044 show all | |||||||||||||||
ltrigg-rtg1 | INDEL | D1_5 | func_cds | het | 98.8304 | 98.8235 | 98.8372 | 34.8485 | 84 | 1 | 85 | 1 | 0 | 0.0000 | |
ghariani-varprowl | SNP | * | func_cds | het | 99.3937 | 99.8746 | 98.9174 | 34.8349 | 11147 | 14 | 11147 | 122 | 2 | 1.6393 | |
eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 0.0000 | 0.0000 | 21.0909 | 34.8341 | 0 | 1 | 58 | 217 | 181 | 83.4101 | |
asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6940 | 99.3898 | 100.0000 | 34.8326 | 1303 | 8 | 1304 | 0 | 0 | ||
egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 76.3332 | 62.1432 | 98.9213 | 34.8317 | 6901 | 4204 | 6511 | 71 | 64 | 90.1408 | |
dgrover-gatk | SNP | * | HG002compoundhet | homalt | 99.8980 | 99.9165 | 99.8794 | 34.8304 | 10773 | 9 | 10768 | 13 | 12 | 92.3077 | |
raldana-dualsentieon | SNP | * | HG002compoundhet | homalt | 99.8887 | 99.8609 | 99.9165 | 34.8192 | 10767 | 15 | 10768 | 9 | 8 | 88.8889 | |
cchapple-custom | INDEL | I6_15 | HG002compoundhet | * | 95.3148 | 93.5278 | 97.1715 | 34.8185 | 8208 | 568 | 9894 | 288 | 283 | 98.2639 | |
anovak-vg | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.8222 | 97.8503 | 97.7942 | 34.8099 | 6600 | 145 | 6606 | 149 | 125 | 83.8926 | |
hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.6049 | 84.5103 | 100.0000 | 34.8074 | 371 | 68 | 457 | 0 | 0 | ||
rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | * | 94.2413 | 93.2455 | 95.2586 | 34.8015 | 8421 | 610 | 8418 | 419 | 413 | 98.5680 | |
dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8855 | 99.7712 | 100.0000 | 34.7956 | 1308 | 3 | 1308 | 0 | 0 | ||
ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 60.8295 | 43.7086 | 100.0000 | 34.7826 | 66 | 85 | 75 | 0 | 0 | ||
ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 92.8571 | 100.0000 | 86.6667 | 34.7826 | 13 | 0 | 13 | 2 | 1 | 50.0000 | |
ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 89.2216 | 80.9904 | 99.3151 | 34.7798 | 1014 | 238 | 1015 | 7 | 7 | 100.0000 | |
qzeng-custom | INDEL | I1_5 | func_cds | * | 99.1720 | 99.4444 | 98.9011 | 34.7670 | 179 | 1 | 180 | 2 | 0 | 0.0000 | |
eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 25.9640 | 21.0884 | 33.7719 | 34.7639 | 155 | 580 | 154 | 302 | 292 | 96.6887 | |
ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.6365 | 93.5989 | 95.6973 | 34.7531 | 658 | 45 | 645 | 29 | 24 | 82.7586 | |
bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7748 | 100.0000 | 99.5506 | 34.7507 | 443 | 0 | 443 | 2 | 2 | 100.0000 | |
bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1822 | 92.7531 | 99.8747 | 34.7506 | 2355 | 184 | 2391 | 3 | 3 | 100.0000 | |
gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 59.1835 | 45.3355 | 85.2120 | 34.7503 | 277 | 334 | 824 | 143 | 142 | 99.3007 | |
bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6756 | 99.9350 | 99.4176 | 34.7502 | 4613 | 3 | 4609 | 27 | 2 | 7.4074 | |
jli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9237 | 99.8474 | 100.0000 | 34.7458 | 1309 | 2 | 1309 | 0 | 0 | ||
hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6415 | 99.7240 | 99.5592 | 34.7388 | 7227 | 20 | 7227 | 32 | 32 | 100.0000 | |
gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.5129 | 76.5088 | 96.9190 | 34.7374 | 3651 | 1121 | 3649 | 116 | 114 | 98.2759 | |
hfeng-pmm3 | SNP | * | HG002compoundhet | homalt | 99.8980 | 99.8887 | 99.9072 | 34.7339 | 10770 | 12 | 10770 | 10 | 10 | 100.0000 | |
anovak-vg | SNP | * | func_cds | het | 98.2393 | 97.5540 | 98.9342 | 34.7247 | 10888 | 273 | 10861 | 117 | 70 | 59.8291 | |
dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9875 | 99.9749 | 100.0000 | 34.7199 | 3986 | 1 | 3986 | 0 | 0 | ||
egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 93.9099 | 89.5234 | 98.7484 | 34.7140 | 2273 | 266 | 2288 | 29 | 28 | 96.5517 | |
rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.2764 | 99.1329 | 99.4203 | 34.7086 | 1715 | 15 | 1715 | 10 | 10 | 100.0000 | |
gduggal-bwaplat | SNP | ti | HG002compoundhet | homalt | 96.4038 | 94.2115 | 98.7006 | 34.6979 | 6966 | 428 | 6912 | 91 | 82 | 90.1099 | |
hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7231 | 93.7001 | 99.9475 | 34.6971 | 13148 | 884 | 13337 | 7 | 6 | 85.7143 | |
jlack-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9333 | 99.9259 | 99.9407 | 34.6955 | 6740 | 5 | 6740 | 4 | 3 | 75.0000 | |
raldana-dualsentieon | INDEL | D6_15 | HG002compoundhet | * | 93.9555 | 91.8392 | 96.1717 | 34.6920 | 8294 | 737 | 8290 | 330 | 328 | 99.3939 | |
rpoplin-dv42 | SNP | ti | HG002complexvar | hetalt | 99.0385 | 99.5169 | 98.5646 | 34.6875 | 206 | 1 | 206 | 3 | 3 | 100.0000 | |
ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 84.1772 | 73.3974 | 98.6684 | 34.6801 | 2290 | 830 | 2297 | 31 | 21 | 67.7419 | |
ckim-dragen | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9481 | 99.9259 | 99.9703 | 34.6642 | 6740 | 5 | 6740 | 2 | 2 | 100.0000 | |
hfeng-pmm2 | INDEL | I1_5 | func_cds | * | 99.4460 | 99.4444 | 99.4475 | 34.6570 | 179 | 1 | 180 | 1 | 0 | 0.0000 | |
anovak-vg | INDEL | I1_5 | func_cds | * | 77.5623 | 77.7778 | 77.3481 | 34.6570 | 140 | 40 | 140 | 41 | 29 | 70.7317 | |
ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6886 | 93.6983 | 99.8760 | 34.6569 | 2379 | 160 | 2416 | 3 | 3 | 100.0000 | |
astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7748 | 100.0000 | 99.5506 | 34.6549 | 443 | 0 | 443 | 2 | 2 | 100.0000 | |
eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.1428 | 99.3625 | 98.9241 | 34.6525 | 6702 | 43 | 6436 | 70 | 24 | 34.2857 | |
gduggal-snapfb | SNP | tv | func_cds | * | 99.4084 | 99.9542 | 98.8685 | 34.6495 | 4369 | 2 | 4369 | 50 | 0 | 0.0000 | |
gduggal-snapvard | SNP | ti | HG002compoundhet | homalt | 89.4254 | 81.9989 | 98.3311 | 34.6481 | 6063 | 1331 | 5067 | 86 | 63 | 73.2558 | |
raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9237 | 99.8474 | 100.0000 | 34.6480 | 1309 | 2 | 1309 | 0 | 0 | ||
mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 91.7166 | 90.1734 | 93.3134 | 34.6469 | 1560 | 170 | 1563 | 112 | 110 | 98.2143 | |
bgallagher-sentieon | INDEL | I1_5 | func_cds | * | 99.4505 | 100.0000 | 98.9071 | 34.6429 | 180 | 0 | 181 | 2 | 0 | 0.0000 | |
jli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9749 | 99.9498 | 100.0000 | 34.6400 | 3985 | 2 | 3985 | 0 | 0 | ||
ltrigg-rtg2 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8729 | 99.7825 | 99.9635 | 34.6365 | 2752 | 6 | 2741 | 1 | 1 | 100.0000 | |
ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 90.8242 | 84.7922 | 97.7800 | 34.6306 | 959 | 172 | 969 | 22 | 17 | 77.2727 |