PrecisionFDA
Truth Challenge

Engage and improve DNA test results with our community challenges

Challenge Closed
View Responses
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
Reset
EntryTypeSubtypeSubsetGenotypeF-scoreRecall PrecisionFrac_NATruth TPTruth FNQuery TPQuery FPFP gt% FP ma
70601-70650 / 86044 show all
ckim-vqsrSNP*lowcmp_AllRepeats_lt51bp_gt95identity_mergedhomalt
99.5376
99.1089
99.9700
56.4901
200191802001966
100.0000
gduggal-bwafbSNP*lowcmp_SimpleRepeat_quadTR_11to50*
98.5802
99.1091
98.0569
48.2748
180211621806635880
22.3464
bgallagher-sentieonINDELD1_5lowcmp_AllRepeats_lt51bp_gt95identity_merged*
99.2748
99.1091
99.4411
74.0482
6385757463870359327
91.0864
ciseli-customSNPtvlowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_mergedhomalt
93.5938
99.1094
88.6598
70.4168
77977749915
15.1515
gduggal-bwafbSNPtimap_l100_m2_e0*
99.1045
99.1095
99.0994
68.4259
4852543648527441108
24.4898
hfeng-pmm3SNPtvmap_l125_m0_e0*
99.1700
99.1102
99.2298
75.2152
6572596571517
13.7255
dgrover-gatkINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_merged*
99.2043
99.1106
99.2981
73.8671
9360984093517661572
86.5356
bgallagher-sentieonSNP*map_l150_m0_e0*
98.7085
99.1107
98.3096
80.7877
119251071192220530
14.6341
jlack-gatkSNPtimap_l100_m2_e1*
97.5095
99.1108
95.9591
74.4631
49045440490382065195
9.4431
egarrison-hhgaSNPtimap_l125_m2_e0*
99.4693
99.1110
99.8302
70.7438
29989269299895124
47.0588
gduggal-bwafbSNPtvmap_l125_m2_e1homalt
99.4877
99.1110
99.8673
71.0512
602054602086
75.0000
ndellapenna-hhgaINDEL*lowcmp_SimpleRepeat_homopolymer_6to10het
99.4473
99.1113
99.7856
56.2027
16283146162903523
65.7143
cchapple-customSNPtilowcmp_SimpleRepeat_diTR_11to50homalt
99.4642
99.1114
99.8195
47.8833
167315165933
100.0000
qzeng-customINDEL*lowcmp_SimpleRepeat_homopolymer_6to10*
98.9022
99.1118
98.6934
54.7879
280092515113767794
13.8848
ckim-vqsrSNPtilowcmp_SimpleRepeat_triTR_11to50het
99.5138
99.1122
99.9186
36.8380
245622245521
50.0000
bgallagher-sentieonINDELD1_5map_l100_m2_e0*
98.8043
99.1123
98.4982
84.6307
1898171902296
20.6897
jli-customSNP*map_l125_m2_e1*
99.3354
99.1123
99.5595
68.9095
467834194678020767
32.3671
gduggal-bwafbSNPtvmap_l125_m1_e0homalt
99.4861
99.1126
99.8624
68.8267
580852580886
75.0000
gduggal-bwafbSNP*map_l125_m1_e0homalt
99.4923
99.1127
99.8748
68.0895
16755150167552113
61.9048
gduggal-bwafbSNPtimap_l125_m1_e0homalt
99.4956
99.1127
99.8814
67.6839
109479810947137
53.8462
ckim-dragenSNPtimap_l150_m1_e0homalt
99.4455
99.1129
99.7803
65.1947
72626572671615
93.7500
jli-customSNP*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
99.1341
99.1132
99.1550
87.2227
2347212347208
40.0000
jlack-gatkSNP*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
98.8835
99.1132
98.6549
87.3860
23472123473217
53.1250
hfeng-pmm3INDEL*segduphet
99.3844
99.1132
99.6571
94.2790
145313145350
0.0000
ckim-vqsrINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331het
99.0685
99.1132
99.0238
69.1438
1363512213593134112
83.5821
ckim-vqsrINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhet
99.0685
99.1132
99.0238
69.1438
1363512213593134112
83.5821
jlack-gatkINDELD1_5**
99.0320
99.1134
98.9507
60.1218
14544413011455021543552
35.7745
hfeng-pmm2INDELD16_PLUS*homalt
99.0257
99.1135
98.9381
67.4789
16771516771812
66.6667
egarrison-hhgaSNPtimap_l125_m2_e1*
99.4698
99.1135
99.8287
70.7805
30298271302985224
46.1538
qzeng-customINDELI1_5lowcmp_SimpleRepeat_diTR_11to50homalt
97.5341
99.1135
96.0043
33.9044
55954445185173
93.5135
gduggal-bwafbSNP*map_l125_m2_e0homalt
99.4945
99.1137
99.8782
70.3251
17221154172212113
61.9048
bgallagher-sentieonSNPtvmap_l125_m0_e0het
98.2208
99.1138
97.3437
79.3814
436239436111915
12.6050
hfeng-pmm1SNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_mergedhet
99.5550
99.1139
100.0000
47.7303
156614156600
ghariani-varprowlSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_mergedhet
95.0613
99.1139
91.3271
69.3870
15661415691490
0.0000
raldana-dualsentieonSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_mergedhet
99.4286
99.1139
99.7452
49.4364
156614156640
0.0000
qzeng-customSNPtvHG002compoundhethomalt
98.8473
99.1145
98.5816
49.2075
33583027804035
87.5000
jlack-gatkSNP*map_l100_m1_e0*
97.0238
99.1147
95.0193
74.0812
71762641717513761290
7.7107
ndellapenna-hhgaSNPtvlowcmp_Human_Full_Genome_TRDB_hg19_150331homalt
99.2704
99.1149
99.4264
74.8452
53754853733127
87.0968
ndellapenna-hhgaSNPtvlowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhomalt
99.2704
99.1149
99.4264
74.8452
53754853733127
87.0968
rpoplin-dv42INDEL*func_cdshomalt
99.3348
99.1150
99.5556
35.7143
224222411
100.0000
asubramanian-gatkINDEL*func_cdshomalt
99.3348
99.1150
99.5556
39.8396
224222411
100.0000
eyeh-varpipeINDELD1_5*homalt
95.4519
99.1150
92.0499
59.2107
484934334844441844111
98.2553
gduggal-snapvardSNPtifunc_cds*
99.4321
99.1151
99.7511
27.3375
13665122136283414
41.1765
ckim-vqsrSNP*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged*
99.3929
99.1153
99.6722
49.8944
4257384257143
21.4286
hfeng-pmm1SNP*map_l100_m1_e0het
99.4173
99.1159
99.7205
63.9471
449584014494712632
25.3968
jli-customSNP*map_l100_m1_e0het
99.2812
99.1159
99.4470
63.0672
449584014495525062
24.8000
gduggal-bwafbSNP*lowcmp_SimpleRepeat_quadTR_11to50het
98.1685
99.1166
97.2384
51.9217
113321011137332359
18.2663
ckim-gatkSNP*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged*
99.2628
99.1167
99.4094
87.9803
26932426931614
87.5000
raldana-dualsentieonINDELD1_5**
99.4299
99.1168
99.7450
58.6151
1454491296145501372312
83.8710
rpoplin-dv42INDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged*
99.2126
99.1168
99.3086
83.9167
35913235912521
84.0000