PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5301-5350 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.7167 | 98.4558 | 98.9789 | 74.5335 | 14346 | 225 | 14346 | 148 | 46 | 31.0811 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.0827 | 79.4287 | 64.3238 | 52.6876 | 10927 | 2830 | 14341 | 7954 | 5860 | 73.6736 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.0827 | 79.4287 | 64.3238 | 52.6876 | 10927 | 2830 | 14341 | 7954 | 5860 | 73.6736 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0431 | 98.3803 | 99.7148 | 74.9713 | 14335 | 236 | 14335 | 41 | 7 | 17.0732 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0431 | 98.3803 | 99.7148 | 74.9713 | 14335 | 236 | 14335 | 41 | 7 | 17.0732 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3304 | 96.9158 | 97.7485 | 53.9045 | 14329 | 456 | 14327 | 330 | 320 | 96.9697 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0389 | 98.3049 | 99.7840 | 74.1160 | 14324 | 247 | 14324 | 31 | 7 | 22.5806 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0389 | 98.3049 | 99.7840 | 74.1160 | 14324 | 247 | 14324 | 31 | 7 | 22.5806 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.7947 | 97.9343 | 84.6254 | 85.1417 | 14270 | 301 | 14322 | 2602 | 202 | 7.7633 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.7947 | 97.9343 | 84.6254 | 85.1417 | 14270 | 301 | 14322 | 2602 | 202 | 7.7633 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3157 | 96.8617 | 97.7740 | 53.9248 | 14321 | 464 | 14319 | 326 | 316 | 96.9325 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8505 | 98.2637 | 99.4444 | 73.4266 | 14318 | 253 | 14318 | 80 | 15 | 18.7500 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8505 | 98.2637 | 99.4444 | 73.4266 | 14318 | 253 | 14318 | 80 | 15 | 18.7500 | |
| astatham-gatk | SNP | ti | map_l125_m2_e1 | het | 85.6126 | 75.0092 | 99.7074 | 80.6356 | 14317 | 4770 | 14313 | 42 | 19 | 45.2381 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8596 | 98.1676 | 99.5615 | 75.0651 | 14304 | 267 | 14304 | 63 | 7 | 11.1111 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8596 | 98.1676 | 99.5615 | 75.0651 | 14304 | 267 | 14304 | 63 | 7 | 11.1111 | |
| gduggal-bwavard | SNP | ti | HG002compoundhet | * | 84.8363 | 81.4967 | 88.4613 | 41.1291 | 14244 | 3234 | 14298 | 1865 | 1554 | 83.3244 | |
| mlin-fermikit | SNP | tv | map_l100_m1_e0 | * | 70.4651 | 58.3772 | 88.8661 | 53.8051 | 14303 | 10198 | 14295 | 1791 | 1587 | 88.6097 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8999 | 98.0990 | 99.7140 | 75.1504 | 14294 | 277 | 14294 | 41 | 13 | 31.7073 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8999 | 98.0990 | 99.7140 | 75.1504 | 14294 | 277 | 14294 | 41 | 13 | 31.7073 | |
| qzeng-custom | SNP | ti | map_l100_m2_e0 | homalt | 87.9965 | 78.9175 | 99.4361 | 59.4553 | 14449 | 3860 | 14284 | 81 | 75 | 92.5926 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3014 | 97.1593 | 99.4708 | 45.1343 | 14365 | 420 | 14284 | 76 | 68 | 89.4737 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.9208 | 96.5506 | 97.2938 | 53.6376 | 14275 | 510 | 14273 | 397 | 386 | 97.2292 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 66.9508 | 90.0254 | 53.2915 | 48.7249 | 14188 | 1572 | 14272 | 12509 | 12414 | 99.2405 | |
| gduggal-snapfb | INDEL | D6_15 | * | het | 85.3034 | 77.5966 | 94.7099 | 36.4009 | 8995 | 2597 | 14269 | 797 | 773 | 96.9887 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0502 | 96.4694 | 97.6380 | 53.4915 | 14263 | 522 | 14261 | 345 | 337 | 97.6812 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8288 | 96.4491 | 97.2114 | 54.8569 | 14260 | 525 | 14258 | 409 | 404 | 98.7775 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.3655 | 97.3387 | 99.4143 | 58.7428 | 14228 | 389 | 14257 | 84 | 51 | 60.7143 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.1017 | 89.1985 | 95.2002 | 47.3849 | 13188 | 1597 | 14241 | 718 | 698 | 97.2145 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.4534 | 92.3513 | 94.5822 | 43.0987 | 9611 | 796 | 14228 | 815 | 315 | 38.6503 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | het | 79.8335 | 92.3396 | 70.3109 | 72.6600 | 14236 | 1181 | 14226 | 6007 | 1268 | 21.1087 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | het | 81.6474 | 71.2611 | 95.5780 | 89.7912 | 14347 | 5786 | 14222 | 658 | 550 | 83.5866 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.4653 | 94.4068 | 92.5425 | 38.8281 | 6971 | 413 | 14221 | 1146 | 906 | 79.0576 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.6577 | 96.6080 | 96.7075 | 54.0122 | 14269 | 501 | 14216 | 484 | 156 | 32.2314 | |
| asubramanian-gatk | SNP | ti | map_l100_m1_e0 | het | 64.3552 | 47.4851 | 99.8174 | 85.5215 | 14218 | 15724 | 14214 | 26 | 10 | 38.4615 | |
| ckim-gatk | SNP | ti | map_l150_m2_e0 | * | 81.1968 | 69.3155 | 97.9938 | 88.2579 | 14218 | 6294 | 14214 | 291 | 35 | 12.0275 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e0 | * | 81.1449 | 69.3009 | 97.8719 | 88.3988 | 14215 | 6297 | 14211 | 309 | 34 | 11.0032 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2216 | 97.3921 | 99.0654 | 77.9808 | 14191 | 380 | 14204 | 134 | 16 | 11.9403 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2216 | 97.3921 | 99.0654 | 77.9808 | 14191 | 380 | 14204 | 134 | 16 | 11.9403 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.5878 | 96.0095 | 97.1732 | 53.9900 | 14195 | 590 | 14197 | 413 | 388 | 93.9467 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.2372 | 87.9811 | 86.5058 | 47.3544 | 13008 | 1777 | 14193 | 2214 | 1144 | 51.6712 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 44.0360 | 38.0774 | 52.2053 | 83.4017 | 11606 | 18874 | 14180 | 12982 | 2052 | 15.8065 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 44.0360 | 38.0774 | 52.2053 | 83.4017 | 11606 | 18874 | 14180 | 12982 | 2052 | 15.8065 | |
| ckim-dragen | SNP | * | HG002compoundhet | het | 99.7322 | 99.6967 | 99.7677 | 46.4046 | 14135 | 43 | 14173 | 33 | 8 | 24.2424 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 91.8499 | 88.8266 | 95.0863 | 43.5099 | 14254 | 1793 | 14165 | 732 | 583 | 79.6448 | |
| gduggal-snapvard | SNP | ti | HG002compoundhet | * | 79.9822 | 79.9565 | 80.0079 | 49.1293 | 13974 | 3503 | 14163 | 3539 | 1489 | 42.0740 | |
| anovak-vg | SNP | * | map_l125_m2_e1 | homalt | 89.7095 | 81.8047 | 99.3055 | 67.9368 | 14342 | 3190 | 14156 | 99 | 83 | 83.8384 | |
| astatham-gatk | SNP | ti | map_l125_m2_e0 | het | 85.6054 | 75.0000 | 99.7041 | 80.6061 | 14157 | 4719 | 14153 | 42 | 19 | 45.2381 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4605 | 86.1404 | 99.7814 | 63.1476 | 14152 | 2277 | 14152 | 31 | 21 | 67.7419 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 93.4760 | 95.9242 | 91.1498 | 55.7793 | 14168 | 602 | 14151 | 1374 | 617 | 44.9054 | |