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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3601-3650 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | ti | map_l150_m2_e0 | * | 99.1376 | 98.9177 | 99.3584 | 75.0879 | 20290 | 222 | 20286 | 131 | 93 | 70.9924 | |
| jli-custom | SNP | ti | map_l150_m2_e0 | * | 99.2101 | 98.8933 | 99.5289 | 73.1343 | 20285 | 227 | 20283 | 96 | 36 | 37.5000 | |
| qzeng-custom | SNP | tv | map_l100_m2_e1 | * | 88.3100 | 80.2832 | 98.1201 | 78.5916 | 20298 | 4985 | 20251 | 388 | 306 | 78.8660 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m2_e1 | * | 98.7779 | 97.6982 | 99.8816 | 65.7932 | 20246 | 477 | 20250 | 24 | 7 | 29.1667 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | * | 96.1925 | 98.6739 | 93.8329 | 83.2384 | 20240 | 272 | 20236 | 1330 | 126 | 9.4737 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6420 | 98.4090 | 98.8761 | 66.2789 | 19546 | 316 | 20235 | 230 | 48 | 20.8696 | |
| gduggal-bwafb | SNP | ti | map_l150_m2_e0 | * | 98.7457 | 98.6398 | 98.8519 | 77.9268 | 20233 | 279 | 20233 | 235 | 69 | 29.3617 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | het | 81.2064 | 69.0122 | 98.6348 | 89.1411 | 20233 | 9085 | 20230 | 280 | 4 | 1.4286 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e0 | * | 88.3689 | 80.8253 | 97.4657 | 81.7790 | 20233 | 4800 | 20229 | 526 | 16 | 3.0418 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | homalt | 84.2134 | 72.7551 | 99.9555 | 67.5514 | 20223 | 7573 | 20223 | 9 | 8 | 88.8889 | |
| gduggal-snapvard | SNP | * | map_l100_m0_e0 | het | 90.2047 | 96.4159 | 84.7453 | 80.5659 | 20445 | 760 | 20216 | 3639 | 248 | 6.8151 | |
| jpowers-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.7629 | 99.8762 | 95.7372 | 62.6774 | 20174 | 25 | 20213 | 900 | 534 | 59.3333 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | het | 98.8048 | 99.2830 | 98.3312 | 79.8100 | 20217 | 146 | 20211 | 343 | 50 | 14.5773 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8360 | 99.8663 | 95.8865 | 61.2690 | 20172 | 27 | 20210 | 867 | 535 | 61.7070 | |
| ckim-gatk | SNP | tv | map_l100_m2_e0 | * | 88.3659 | 80.7254 | 97.6039 | 81.5961 | 20208 | 4825 | 20204 | 496 | 17 | 3.4274 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | het | 99.2946 | 99.2143 | 99.3751 | 76.6790 | 20203 | 160 | 20197 | 127 | 13 | 10.2362 | |
| ghariani-varprowl | SNP | ti | map_l150_m2_e0 | * | 97.8795 | 98.4497 | 97.3158 | 80.1688 | 20194 | 318 | 20194 | 557 | 133 | 23.8779 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | het | 98.9757 | 99.1897 | 98.7625 | 81.1801 | 20198 | 165 | 20192 | 253 | 50 | 19.7628 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e1 | het | 98.9487 | 99.1652 | 98.7332 | 79.6403 | 20193 | 170 | 20187 | 259 | 23 | 8.8803 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9455 | 99.9307 | 99.9604 | 55.9950 | 20185 | 14 | 20185 | 8 | 8 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9480 | 99.9257 | 99.9703 | 57.5983 | 20184 | 15 | 20184 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9381 | 99.9059 | 99.9703 | 56.7400 | 20180 | 19 | 20180 | 6 | 6 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8416 | 99.9455 | 56.0535 | 20167 | 32 | 20178 | 11 | 11 | 100.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9232 | 99.8960 | 99.9505 | 56.3257 | 20178 | 21 | 20178 | 10 | 10 | 100.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9257 | 99.8911 | 99.9604 | 56.1148 | 20177 | 22 | 20177 | 8 | 7 | 87.5000 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9282 | 99.8911 | 99.9653 | 56.4446 | 20177 | 22 | 20177 | 7 | 7 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9133 | 99.8812 | 99.9455 | 56.3725 | 20175 | 24 | 20175 | 11 | 7 | 63.6364 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e0 | * | 99.0695 | 98.3571 | 99.7923 | 74.0705 | 20175 | 337 | 20175 | 42 | 23 | 54.7619 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8935 | 99.8564 | 99.9306 | 55.5702 | 20170 | 29 | 20170 | 14 | 13 | 92.8571 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8787 | 99.8366 | 99.9207 | 56.8327 | 20166 | 33 | 20166 | 16 | 7 | 43.7500 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | homalt | 84.0675 | 72.5428 | 99.9455 | 68.3772 | 20164 | 7632 | 20164 | 11 | 7 | 63.6364 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 89.1434 | 91.8292 | 86.6102 | 71.1229 | 3248 | 289 | 20162 | 3117 | 3094 | 99.2621 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.7656 | 99.5841 | 96.0122 | 62.9104 | 20115 | 84 | 20152 | 837 | 723 | 86.3799 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 53.8310 | 52.3323 | 55.4180 | 55.7723 | 19835 | 18067 | 20150 | 16210 | 13033 | 80.4010 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 87.5291 | 86.9258 | 88.1409 | 52.6080 | 19341 | 2909 | 20149 | 2711 | 1465 | 54.0391 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8587 | 99.7475 | 99.9702 | 56.3085 | 20148 | 51 | 20148 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.4961 | 97.7763 | 99.2266 | 43.2593 | 20138 | 458 | 20142 | 157 | 149 | 94.9045 | |
| jlack-gatk | SNP | * | map_l150_m2_e1 | het | 93.7014 | 98.9098 | 89.0141 | 86.6201 | 20141 | 222 | 20135 | 2485 | 178 | 7.1630 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4699 | 97.9603 | 96.9843 | 55.7493 | 19787 | 412 | 20132 | 626 | 469 | 74.9201 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8116 | 99.6584 | 99.9652 | 56.5451 | 20130 | 69 | 20130 | 7 | 7 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e0 | * | 98.9478 | 98.1084 | 99.8017 | 69.1640 | 20124 | 388 | 20128 | 40 | 16 | 40.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.1958 | 90.6831 | 95.8516 | 40.5987 | 20177 | 2073 | 20125 | 871 | 757 | 86.9116 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7942 | 99.6237 | 99.9652 | 56.3615 | 20123 | 76 | 20123 | 7 | 7 | 100.0000 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | het | 98.9259 | 98.8361 | 99.0157 | 75.7529 | 20126 | 237 | 20120 | 200 | 117 | 58.5000 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | het | 96.9234 | 98.7821 | 95.1334 | 83.0282 | 20115 | 248 | 20115 | 1029 | 199 | 19.3392 | |
| mlin-fermikit | INDEL | I6_15 | * | * | 85.1815 | 80.6671 | 90.2311 | 47.3715 | 20024 | 4799 | 20108 | 2177 | 2161 | 99.2650 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8016 | 99.6534 | 99.9503 | 52.1900 | 20129 | 70 | 20107 | 10 | 3 | 30.0000 | |
| hfeng-pmm1 | SNP | * | map_l150_m2_e1 | het | 99.1153 | 98.7674 | 99.4657 | 76.0302 | 20112 | 251 | 20106 | 108 | 27 | 25.0000 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e1 | het | 98.5420 | 98.7576 | 98.3273 | 78.0672 | 20110 | 253 | 20104 | 342 | 4 | 1.1696 | |
| ckim-dragen | SNP | * | map_l150_m2_e1 | het | 97.5066 | 98.7084 | 96.3337 | 81.8435 | 20100 | 263 | 20101 | 765 | 71 | 9.2811 | |