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 FN Query TPQuery FPFP gt% FP ma
7251-7300 / 86044 show all
gduggal-bwaplatSNPtvlowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
69.0120
55.2569
91.8848
94.6637
6995667026214
22.5806
qzeng-customINDEL*map_l125_m2_e0*
82.8587
74.2259
93.7640
91.6841
1630566209013947
33.8129
ndellapenna-hhgaINDELI6_15lowcmp_Human_Full_Genome_TRDB_hg19_150331*
93.4581
91.0630
95.9827
61.5473
57575655758241180
74.6888
ndellapenna-hhgaINDELI6_15lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
93.4581
91.0630
95.9827
61.5473
57575655758241180
74.6888
ltrigg-rtg2SNPtvHG002complexvar*
99.8482
99.7705
99.9260
21.7021
24559056524583418272
39.5604
anovak-vgSNPtvlowcmp_AllRepeats_lt51bp_gt95identity_mergedhet
95.8647
96.7839
94.9628
65.9014
1700356517476927381
41.1003
anovak-vgINDEL*lowcmp_SimpleRepeat_triTR_11to50hetalt
0.0000
38.7866
0.0000
0.0000
358565000
ckim-gatkINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged*
97.9631
97.2567
98.6798
47.9874
2003156520032268262
97.7612
cchapple-customINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
97.9495
96.9056
99.0161
33.0779
1769456518416183178
97.2678
gduggal-snapvardINDELD1_5lowcmp_SimpleRepeat_quadTR_11to50hetalt
0.0000
62.1567
0.0000
0.0000
928565000
gduggal-snapfbSNP*map_l100_m0_e0homalt
97.2638
95.1377
99.4870
75.4317
11055565110555721
36.8421
ckim-vqsrINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331hetalt
96.6665
93.9188
99.5798
30.8815
872656587683737
100.0000
ckim-vqsrINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhetalt
96.6665
93.9188
99.5798
30.8815
872656587683737
100.0000
ltrigg-rtg1SNP*map_l150_m2_e0het
98.4430
97.1937
99.7248
66.0349
1956856519569549
16.6667
jpowers-varprowlSNP*map_l150_m0_e0*
95.7982
95.3125
96.2888
84.7317
1146856411468442141
31.9005
jpowers-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged*
76.4099
73.8404
79.1646
73.0862
15925641592419404
96.4200
ckim-gatkINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331hetalt
96.6722
93.9296
99.5798
30.8791
872756487693737
100.0000
ckim-gatkINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhetalt
96.6722
93.9296
99.5798
30.8791
872756487693737
100.0000
cchapple-customSNP*map_l125_m2_e0homalt
98.3473
96.7540
99.9941
64.3980
168115641680611
100.0000
cchapple-customSNP*map_l125_m2_e1homalt
98.3624
96.7830
99.9941
64.4456
169685641696211
100.0000
ndellapenna-hhgaSNP*HG002compoundhet*
98.3720
97.8158
98.9346
39.5539
2525856425258272233
85.6618
hfeng-pmm1SNP*lowcmp_AllRepeats_lt51bp_gt95identity_mergedhet
99.1579
98.4076
99.9197
59.2367
3485556434845285
17.8571
astatham-gatkINDEL*lowcmp_AllRepeats_51to200bp_gt95identity_merged*
94.9849
94.4009
95.5762
69.0899
95095649355433393
90.7621
gduggal-bwaplatINDELD16_PLUSlowcmp_AllRepeats_lt51bp_gt95identity_mergedhet
72.7369
58.3764
96.4677
87.8568
7915647922921
72.4138
ghariani-varprowlINDELD1_5*het
92.9952
99.3560
87.3999
64.6847
87009564869831254010606
84.5774
gduggal-snapplatINDELD1_5lowcmp_SimpleRepeat_triTR_11to50homalt
68.3405
57.5940
84.0173
50.8840
7665641167222125
56.3063
gduggal-snapplatSNP*lowcmp_SimpleRepeat_triTR_11to50homalt
88.3969
79.4375
99.6342
42.5683
2175563217984
50.0000
gduggal-snapplatSNPtvmap_l250_m2_e0*
86.3687
80.4650
93.2074
94.2777
2319563231916971
42.0118
hfeng-pmm3SNPtiHG002compoundhethet
96.8798
94.0768
99.8549
38.2659
89425638944133
23.0769
ciseli-customINDELI1_5map_l100_m1_e0*
63.5476
57.9537
70.3367
84.8997
776563773326278
85.2761
cchapple-customINDELD1_5*hetalt
0.0000
94.5046
0.0000
0.0000
9682563000
qzeng-customINDEL*lowcmp_SimpleRepeat_diTR_11to50het
94.5069
96.4277
92.6612
46.2676
151975634202033282198
66.0457
egarrison-hhgaINDELD16_PLUSlowcmp_SimpleRepeat_diTR_11to50*
78.4352
68.5826
91.5936
64.7059
1229563125311590
78.2609
dgrover-gatkINDELI6_15HG002compoundhet*
94.9104
93.5962
96.2620
37.4707
82145628215319317
99.3730
gduggal-snapplatSNP*map_l250_m2_e0homalt
88.2609
79.0767
99.8589
89.3960
2124562212333
100.0000
ltrigg-rtg1SNPtimap_l100_m1_e0*
99.3155
98.8275
99.8083
56.5736
47369562473719127
29.6703
rpoplin-dv42SNPtv**
99.9512
99.9420
99.9604
21.8980
969128562969027384163
42.4479
hfeng-pmm3SNP*lowcmp_AllRepeats_lt51bp_gt95identity_merged*
99.4564
98.9898
99.9274
58.6346
55069562550604015
37.5000
gduggal-bwavardINDELD1_5lowcmp_AllRepeats_lt51bp_gt95identity_mergedhet
86.2553
98.3091
76.8345
75.3229
326745623251198029224
94.1032
asubramanian-gatkINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhetalt
95.9616
93.1237
98.9779
28.5807
761156276507973
92.4051
ciseli-customINDELD6_15lowcmp_SimpleRepeat_triTR_11to50hetalt
0.0000
3.9384
0.0000
0.0000
23561000
ckim-isaacSNP*segduphet
98.3305
96.7604
99.9523
88.4697
167565611675881
12.5000
ltrigg-rtg1SNP*map_l150_m1_e0het
98.3972
97.0957
99.7341
63.5971
1875556118755509
18.0000
gduggal-bwaplatINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhet
71.9701
57.8195
95.2912
87.3887
7695617693833
86.8421
hfeng-pmm2INDELD1_5*hetalt
97.1704
94.5242
99.9692
63.6326
9684561972631
33.3333
hfeng-pmm2INDELD1_5HG002compoundhethetalt
97.1670
94.5086
99.9793
58.9151
9655561965520
0.0000
anovak-vgSNPtvmap_l250_m2_e1*
74.0862
80.7956
68.4057
91.5330
235656023471084260
23.9852
anovak-vgINDEL*map_l125_m2_e0*
72.8494
74.4991
71.2712
87.8407
16365601682678383
56.4897
rpoplin-dv42INDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331hetalt
96.6089
93.9727
99.3973
31.2378
873156087415352
98.1132
rpoplin-dv42INDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhetalt
96.6089
93.9727
99.3973
31.2378
873156087415352
98.1132