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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79001-79050 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8563 | 99.7624 | 99.9504 | 49.5168 | 10078 | 24 | 10078 | 5 | 5 | 100.0000 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | homalt | 94.8523 | 93.4799 | 96.2656 | 42.1750 | 10079 | 703 | 10002 | 388 | 273 | 70.3608 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8860 | 99.8316 | 99.9405 | 61.6312 | 10080 | 17 | 10080 | 6 | 4 | 66.6667 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8910 | 99.8415 | 99.9405 | 60.8743 | 10081 | 16 | 10081 | 6 | 6 | 100.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8415 | 99.9603 | 61.7282 | 10081 | 16 | 10081 | 4 | 4 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9059 | 99.8514 | 99.9603 | 61.6429 | 10082 | 15 | 10082 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8514 | 99.9504 | 61.6260 | 10082 | 15 | 10082 | 5 | 5 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9158 | 99.8613 | 99.9703 | 61.4918 | 10083 | 14 | 10085 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8165 | 99.8119 | 95.8994 | 55.8743 | 10083 | 19 | 10103 | 432 | 262 | 60.6481 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9108 | 99.8613 | 99.9603 | 61.0721 | 10083 | 14 | 10083 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8762 | 99.8119 | 99.9405 | 50.3909 | 10083 | 19 | 10083 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8811 | 99.8613 | 99.9009 | 61.7921 | 10083 | 14 | 10083 | 10 | 2 | 20.0000 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8713 | 99.8218 | 99.9208 | 48.8376 | 10084 | 18 | 10093 | 8 | 8 | 100.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.5573 | 99.8218 | 95.3932 | 57.7564 | 10084 | 18 | 10105 | 488 | 257 | 52.6639 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8317 | 99.9703 | 49.2989 | 10085 | 17 | 10085 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9306 | 99.8911 | 99.9703 | 61.3700 | 10086 | 11 | 10086 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9455 | 99.9208 | 99.9703 | 62.5348 | 10089 | 8 | 10089 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8960 | 99.8713 | 99.9208 | 48.6105 | 10089 | 13 | 10089 | 8 | 7 | 87.5000 | |
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.8554 | 99.9208 | 95.8736 | 65.4859 | 10089 | 8 | 10107 | 435 | 273 | 62.7586 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9694 | 99.9307 | 96.0837 | 66.5958 | 10090 | 7 | 10108 | 412 | 277 | 67.2330 | |
| mlin-fermikit | SNP | * | map_l125_m2_e0 | homalt | 66.1120 | 58.0777 | 76.7260 | 57.2932 | 10091 | 7284 | 10091 | 3061 | 2900 | 94.7403 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9406 | 99.9208 | 99.9604 | 49.7187 | 10094 | 8 | 10094 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9505 | 99.9307 | 99.9703 | 51.1679 | 10095 | 7 | 10095 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9406 | 99.9307 | 99.9505 | 49.4545 | 10095 | 7 | 10095 | 5 | 3 | 60.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9616 | 97.0020 | 98.9403 | 47.2355 | 10095 | 312 | 10084 | 108 | 100 | 92.5926 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9456 | 99.9406 | 99.9505 | 49.3379 | 10096 | 6 | 10096 | 5 | 5 | 100.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9554 | 99.9406 | 99.9703 | 49.4797 | 10096 | 6 | 10096 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | HG002complexvar | homalt | 92.9611 | 95.2727 | 90.7590 | 57.9711 | 10097 | 501 | 10224 | 1041 | 840 | 80.6916 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9703 | 99.9604 | 99.9802 | 50.4100 | 10098 | 4 | 10098 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9604 | 99.9703 | 99.9505 | 48.8948 | 10099 | 3 | 10099 | 5 | 5 | 100.0000 | |
| eyeh-varpipe | SNP | tv | map_l125_m1_e0 | het | 96.7521 | 99.7334 | 93.9440 | 75.6347 | 10099 | 27 | 9990 | 644 | 13 | 2.0186 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 91.2721 | 93.5191 | 89.1304 | 80.4771 | 10101 | 700 | 10578 | 1290 | 640 | 49.6124 | |
| jlack-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 94.9037 | 90.3820 | 99.9017 | 57.2515 | 10102 | 1075 | 10162 | 10 | 9 | 90.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2885 | 97.1365 | 99.4681 | 47.3280 | 10109 | 298 | 10098 | 54 | 38 | 70.3704 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2782 | 97.1365 | 99.4471 | 33.4959 | 10109 | 298 | 17626 | 98 | 90 | 91.8367 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.3558 | 97.1558 | 99.5859 | 47.3310 | 10111 | 296 | 10101 | 42 | 37 | 88.0952 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.0148 | 97.6827 | 88.7726 | 47.1861 | 10117 | 240 | 10097 | 1277 | 1255 | 98.2772 | |
| jlack-gatk | INDEL | I1_5 | * | hetalt | 94.8892 | 90.3796 | 99.8725 | 62.8887 | 10118 | 1077 | 10180 | 13 | 12 | 92.3077 | |
| jpowers-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 96.2485 | 95.4897 | 97.0194 | 51.0621 | 10120 | 478 | 10058 | 309 | 250 | 80.9061 | |
| ghariani-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 95.9196 | 95.4992 | 96.3438 | 51.1776 | 10121 | 477 | 10066 | 382 | 245 | 64.1361 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.3161 | 87.6212 | 99.8027 | 73.3610 | 10122 | 1430 | 10118 | 20 | 17 | 85.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.3161 | 87.6212 | 99.8027 | 73.3610 | 10122 | 1430 | 10118 | 20 | 17 | 85.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.5282 | 97.7986 | 91.4694 | 41.2757 | 10129 | 228 | 10122 | 944 | 934 | 98.9407 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | * | 86.4991 | 81.9764 | 91.5499 | 51.1004 | 10129 | 2227 | 10130 | 935 | 794 | 84.9198 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4016 | 97.3287 | 99.4985 | 47.5257 | 10129 | 278 | 10118 | 51 | 47 | 92.1569 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7686 | 99.5382 | 100.0000 | 50.6863 | 10131 | 47 | 10095 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 49.3962 | 45.5461 | 53.9573 | 55.1768 | 10134 | 12116 | 10117 | 8633 | 8451 | 97.8918 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8537 | 97.8565 | 99.8715 | 37.6633 | 10135 | 222 | 10103 | 13 | 13 | 100.0000 | |
| ciseli-custom | SNP | * | map_l100_m0_e0 | homalt | 87.9778 | 87.2289 | 88.7396 | 61.6447 | 10136 | 1484 | 10103 | 1282 | 1041 | 81.2012 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7242 | 99.5972 | 99.8516 | 52.5270 | 10137 | 41 | 10092 | 15 | 11 | 73.3333 | |