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.
EntryTypeSubtypeSubsetGenotypeF-scoreRecallPrecisionFrac_NATruth TPTruth FNQuery TPQuery FP FP gt% FP ma
82401-82450 / 86044 show all
hfeng-pmm3INDEL*HG002compoundhet*
94.8142
92.3999
97.3580
58.7757
27683227727564748724
96.7914
jpowers-varprowlSNP*map_l150_m2_e1*
97.1814
96.7122
97.6551
80.7455
31151105931151748233
31.1497
jmaeng-gatkSNPtvmap_sirenhet
94.8661
92.5932
97.2533
75.2567
2649021192648574825
3.3423
gduggal-snapfbINDELD1_5lowcmp_AllRepeats_51to200bp_gt95identity_mergedhet
69.3518
70.9929
67.7849
64.5633
10014091576749136
18.1575
ciseli-customSNPtvmap_l125_m0_e0het
70.2747
63.3947
78.8298
84.9536
27901611278974926
3.4713
qzeng-customINDEL*lowcmp_SimpleRepeat_quadTR_11to50het
96.8049
97.4163
96.2011
51.9614
1082128718967749273
36.4486
qzeng-customINDELI1_5lowcmp_AllRepeats_lt51bp_gt95identity_mergedhet
97.6451
97.4107
97.8807
69.5745
594415834593749587
78.3712
dgrover-gatkINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged*
97.7491
97.4988
98.0006
56.6076
3695494836761750723
96.4000
qzeng-customSNP*map_l125_m2_e0het
84.0186
74.3127
96.6407
86.6277
21787753121605751614
81.7577
ckim-dragenSNP*map_l150_m2_e0het
97.5195
98.7086
96.3588
81.7586
198732601987475169
9.1878
ghariani-varprowlSNPtvmap_l100_m1_e0het
97.2713
99.3060
95.3184
75.1777
153101071531175297
12.8989
gduggal-snapfbSNPtvlowcmp_SimpleRepeat_diTR_51to200het
3.0730
70.5882
1.5707
75.7691
125127522
0.2660
eyeh-varpipeSNPtvHG002complexvar*
99.7847
99.8883
99.6813
20.5762
245880275235205752120
15.9574
jpowers-varprowlSNP*map_l100_m0_e0*
97.2063
96.7297
97.6876
74.3551
31767107431768752236
31.3830
qzeng-customSNP*map_l125_m2_e1het
84.1292
74.4636
96.6784
86.6172
22071756921888752615
81.7819
eyeh-varpipeINDEL*lowcmp_SimpleRepeat_triTR_11to50homalt
88.0775
95.1208
82.0053
38.4898
20471053427752750
99.7340
egarrison-hhgaINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_mergedhomalt
97.7893
98.0137
97.5659
71.4911
3015061130142752362
48.1383
gduggal-snapplatINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_mergedhetalt
54.4770
39.2554
88.9798
82.4941
605293656088754644
85.4111
gduggal-snapplatINDELI1_5*hetalt
55.9163
41.4113
86.0603
83.9805
463665594655754516
68.4350
gduggal-snapvardSNPtvlowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_mergedhet
62.1311
88.2872
47.9310
90.8828
7019369575539
5.1656
gduggal-snapfbSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged*
88.5028
99.3917
79.7641
72.5419
294118297675516
2.1192
ghariani-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged*
84.9840
84.8017
85.1670
81.2419
43417784335755704
93.2450
ghariani-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhomalt
52.0817
37.5305
85.0613
64.9709
431071744299755639
84.6358
ckim-gatkSNP*map_l125_m1_e0*
84.2159
73.9471
97.7967
84.1626
33518118093351275558
7.6821
eyeh-varpipeSNP*map_l150_m1_e0*
98.5692
99.6472
97.5143
77.5222
305011082961975530
3.9735
mlin-fermikitSNP*map_sirenhet
82.6394
70.9993
98.8447
48.1176
64603263886459575518
2.3841
jmaeng-gatkSNPtvmap_siren*
92.8750
88.1232
98.1685
71.3358
4047554554046775531
4.1060
jpowers-varprowlINDELD1_5*homalt
93.6510
89.4228
98.2990
49.9719
43751517543688756634
83.8624
ckim-dragenINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhomalt
96.6367
99.6517
93.7987
63.9277
114444011435756746
98.6772
gduggal-snapplatINDEL*lowcmp_SimpleRepeat_quadTR_51to200het
18.7853
15.3926
24.0964
85.0898
149819240756119
15.7407
qzeng-customSNPti*homalt
99.6207
99.3383
99.9047
15.9860
7977255314792891756473
62.5661
gduggal-bwafbSNP*map_l100_m2_e0het
98.6971
99.0172
98.3791
71.2956
4594345645945757143
18.8904
gduggal-bwafbSNPtimap_sirenhet
99.0568
99.3219
98.7930
59.4400
6195942361963757131
17.3052
ciseli-customINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
43.8454
39.1619
49.8013
62.4191
7571176752758719
94.8549
ckim-vqsrINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged*
97.4429
96.9236
97.9678
56.0572
36736116636542758728
96.0422
anovak-vgINDELD6_15lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_mergedhomalt
55.0422
49.2827
62.3260
55.4966
116812021254758535
70.5805
qzeng-customINDELI6_15lowcmp_SimpleRepeat_diTR_11to50*
86.7930
84.0381
89.7346
47.2948
20273856626758648
85.4881
gduggal-snapvardINDELC1_5HG002compoundhethet
0.0000
0.0000
29.6193
80.5174
00319758106
13.9842
gduggal-snapplatINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged*
57.5781
55.1232
60.2618
82.2738
850692115175932
4.2161
ckim-isaacINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhet
93.2809
95.5574
91.1103
49.1422
80233737779759657
86.5613
ciseli-customINDELI1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
40.9601
29.3830
67.5918
54.6739
174341891583759616
81.1594
gduggal-bwavardSNPtimap_l250_m1_e0het
87.4417
97.6415
79.1712
92.9128
289870288575920
2.6351
ckim-dragenSNP*map_l150_m1_e0*
98.2024
98.8631
97.5505
76.7332
302613483026776093
12.2368
jpowers-varprowlINDELI1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_mergedhet
66.7282
78.5285
58.0110
55.6155
10462861050760754
99.2105
ghariani-varprowlINDEL*map_sirenhet
91.4200
98.4028
85.3626
87.1990
4436724438761424
55.7162
qzeng-customSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331*
97.8254
98.0798
97.5723
79.1147
3054559830586761104
13.6662
qzeng-customSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
97.8254
98.0798
97.5723
79.1147
3054559830586761104
13.6662
qzeng-customINDELI1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged*
89.5893
84.9685
94.7416
48.7318
7145126413711761716
94.0867
ciseli-customINDEL*lowcmp_SimpleRepeat_triTR_11to50het
84.3637
87.9716
81.0401
48.2088
32184403257762318
41.7323
ciseli-customINDEL*map_l100_m1_e0*
70.4613
65.9230
75.6705
87.5050
236412222370762504
66.1417