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.

Entry	Type	Subtype	Subset	Genotype	F-score	Recall	Precision	Frac_NA	Truth TP	Truth FN	Query TP	Query FP	FP gt	% FP ma

« 1 2 ... 1140 1141 1142 1143 1144 1145 1146 1147 1148 ... 1720 1721 » 57151-57200 / 86044 show all
qzeng-custom	INDEL	I1_5	lowcmp_SimpleRepeat_homopolymer_6to10	het	98.9865	98.4716	99.5069	53.0976	1353	21	15941	79	10	12.6582
jlack-gatk	INDEL	I1_5	HG002complexvar	homalt	99.7623	99.8364	99.6883	53.0964	13426	22	13432	42	40	95.2381
ltrigg-rtg1	INDEL	*	HG002complexvar	het	98.9136	98.2515	99.5847	53.0906	45404	808	44604	186	79	42.4731
jlack-gatk	SNP	tv	tech_badpromoters	homalt	98.7013	97.4359	100.0000	53.0864	38	1	38	0	0
ckim-vqsr	INDEL	*	tech_badpromoters	het	98.7013	97.4359	100.0000	53.0864	38	1	38	0	0
ckim-gatk	INDEL	*	tech_badpromoters	het	98.7013	97.4359	100.0000	53.0864	38	1	38	0	0
hfeng-pmm3	SNP	tv	HG002compoundhet	het	94.3711	89.5142	99.7852	53.0848	4183	490	4181	9	2	22.2222
hfeng-pmm2	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	het	99.3479	98.8298	99.8715	53.0817	3885	46	3885	5	0	0.0000
hfeng-pmm2	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8756	99.8135	99.9378	53.0803	1606	3	1606	1	0	0.0000
dgrover-gatk	SNP	tv	map_siren	homalt	99.7938	99.6520	99.9360	53.0780	17180	60	17177	11	9	81.8182
gduggal-snapplat	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_11to50	*	36.7443	23.6507	82.3171	53.0758	872	2815	810	174	64	36.7816
cchapple-custom	SNP	*	lowcmp_AllRepeats_51to200bp_gt95identity_merged	homalt	99.6843	99.4279	99.9421	53.0723	1738	10	1725	1	1	100.0000
gduggal-bwaplat	SNP	*	HG002compoundhet	het	83.0864	88.0801	78.6286	53.0695	12488	1690	12671	3444	265	7.6945
raldana-dualsentieon	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	homalt	97.5933	99.7860	95.4949	53.0674	2798	6	2798	132	131	99.2424
ckim-vqsr	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	het	99.2158	98.9203	99.5131	53.0673	2657	29	2657	13	2	15.3846
hfeng-pmm1	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	*	97.3881	95.8010	99.0287	53.0662	16929	742	16924	166	154	92.7711
hfeng-pmm1	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	*	97.3881	95.8010	99.0287	53.0662	16929	742	16924	166	154	92.7711
bgallagher-sentieon	INDEL	I16_PLUS	HG002compoundhet	*	93.0399	90.7606	95.4367	53.0631	1945	198	1945	93	93	100.0000
ltrigg-rtg2	INDEL	I16_PLUS	lowcmp_SimpleRepeat_homopolymer_6to10	hetalt	88.3843	82.1429	95.6522	53.0612	23	5	22	1	1	100.0000
anovak-vg	INDEL	D6_15	lowcmp_AllRepeats_51to200bp_gt95identity_merged	homalt	32.8267	24.7508	48.7252	53.0585	149	453	172	181	136	75.1381
cchapple-custom	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	homalt	99.9276	99.8554	100.0000	53.0584	1381	2	1366	0	0
gduggal-snapvard	INDEL	*	lowcmp_SimpleRepeat_quadTR_11to50	het	70.9040	85.7657	60.4321	53.0525	9526	1581	16837	11024	7799	70.7456
gduggal-bwavard	INDEL	I6_15	HG002complexvar	*	69.2732	64.9624	74.1967	53.0461	3113	1679	3048	1060	990	93.3962
gduggal-snapvard	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	*	55.4931	52.6341	58.6805	53.0447	22809	20526	37552	26442	22338	84.4792
ltrigg-rtg1	SNP	*	lowcmp_SimpleRepeat_homopolymer_6to10	homalt	99.8931	99.7865	100.0000	53.0439	6075	13	6078	0	0
asubramanian-gatk	INDEL	D16_PLUS	lowcmp_SimpleRepeat_diTR_51to200	homalt	90.9774	95.2756	87.0504	53.0405	121	6	121	18	15	83.3333
mlin-fermikit	SNP	ti	lowcmp_AllRepeats_lt51bp_gt95identity_merged	het	98.0436	96.7173	99.4069	53.0396	17265	586	17262	103	9	8.7379
ltrigg-rtg2	SNP	ti	map_l100_m2_e0	het	98.9081	98.0635	99.7675	53.0390	30029	593	30032	70	6	8.5714
ndellapenna-hhga	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_11to50	*	87.6160	82.5603	93.3313	53.0320	3044	643	3065	219	187	85.3881
gduggal-bwaplat	INDEL	D16_PLUS	lowcmp_SimpleRepeat_quadTR_11to50	hetalt	79.2661	65.8537	99.5392	53.0303	216	112	216	1	1	100.0000
jpowers-varprowl	INDEL	D6_15	func_cds	het	90.0000	93.1034	87.0968	53.0303	27	2	27	4	4	100.0000
hfeng-pmm3	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	*	99.5327	99.1851	99.8828	53.0235	4260	35	4260	5	0	0.0000
gduggal-bwafb	SNP	ti	*	hetalt	99.7425	99.8282	99.6569	53.0218	581	1	581	2	2	100.0000
hfeng-pmm1	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	*	99.6595	99.3855	99.9350	53.0212	6146	38	6146	4	0	0.0000
jmaeng-gatk	INDEL	D16_PLUS	lowcmp_SimpleRepeat_diTR_51to200	homalt	94.3820	99.2126	90.0000	53.0201	126	1	126	14	13	92.8571
ltrigg-rtg1	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	homalt	98.9739	98.2672	99.6909	53.0163	11285	199	11289	35	33	94.2857
ghariani-varprowl	INDEL	*	lowcmp_SimpleRepeat_diTR_11to50	het	69.5318	96.2754	54.4161	53.0143	15173	587	15255	12779	12436	97.3159
gduggal-bwavard	INDEL	D6_15	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	64.9017	48.2133	99.2588	53.0137	1754	1884	1741	13	10	76.9231
dgrover-gatk	INDEL	I16_PLUS	HG002compoundhet	*	94.7743	93.0938	96.5167	53.0120	1995	148	1995	72	72	100.0000
ltrigg-rtg2	SNP	tv	tech_badpromoters	homalt	100.0000	100.0000	100.0000	53.0120	39	0	39	0	0
ndellapenna-hhga	SNP	*	map_siren	*	99.5283	99.1937	99.8651	53.0102	145049	1179	145051	196	89	45.4082
jmaeng-gatk	INDEL	I6_15	HG002complexvar	hetalt	95.0665	90.5969	100.0000	53.0086	1108	115	1148	0	0
anovak-vg	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	homalt	60.8555	82.6087	48.1707	53.0086	76	16	79	85	74	87.0588
qzeng-custom	INDEL	I6_15	HG002complexvar	hetalt	86.3689	76.2878	99.5200	53.0075	933	290	622	3	1	33.3333
dgrover-gatk	INDEL	I1_5	HG002complexvar	homalt	99.8663	99.9256	99.8070	53.0009	13438	10	13443	26	25	96.1538
bgallagher-sentieon	INDEL	I1_5	HG002complexvar	homalt	99.8440	99.9256	99.7625	52.9997	13438	10	13443	32	31	96.8750
dgrover-gatk	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	*	97.4797	95.7302	99.2944	52.9989	6614	295	6614	47	42	89.3617
gduggal-bwafb	INDEL	*	lowcmp_SimpleRepeat_quadTR_11to50	homalt	96.0102	95.2734	96.7586	52.9962	5785	287	5791	194	179	92.2680
ckim-dragen	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	*	96.6346	96.2423	97.0302	52.9948	13267	518	13265	406	403	99.2611
eyeh-varpipe	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	hetalt	50.9371	34.6330	96.2465	52.9921	3846	7259	5436	212	205	96.6981

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge