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 ... 400 401 402 403 404 405 406 407 408 ... 1720 1721 » 20151-20200 / 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
qzeng-custom	SNP	tv	*	het	99.3391	99.1721	99.5067	29.7409	586805	4899	585578	2903	302	10.4030
ltrigg-rtg2	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	*	98.1115	96.7548	99.5067	50.1900	36672	1230	36914	183	147	80.3279
ltrigg-rtg2	INDEL	D1_5	HG002complexvar	het	99.3002	99.0946	99.5066	51.3766	20577	188	20368	101	44	43.5644
hfeng-pmm2	SNP	*	lowcmp_AllRepeats_51to200bp_gt95identity_merged	*	98.4084	97.3342	99.5065	66.1830	4637	127	4638	23	1	4.3478
jli-custom	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	hetalt	98.9021	98.3051	99.5064	29.1608	928	16	1008	5	5	100.0000
dgrover-gatk	SNP	*	segdup	*	99.6727	99.8397	99.5063	90.5121	28022	45	28016	139	12	8.6331
gduggal-bwaplat	SNP	tv	*	het	98.5255	97.5640	99.5062	36.2003	577282	14414	577577	2866	351	12.2470
gduggal-bwaplat	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	homalt	90.0576	82.2478	99.5062	84.1820	3220	695	3224	16	14	87.5000
qzeng-custom	SNP	ti	lowcmp_AllRepeats_51to200bp_gt95identity_merged	homalt	99.3033	99.1013	99.5062	65.8995	1213	11	1209	6	3	50.0000
hfeng-pmm1	INDEL	D6_15	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	99.6018	99.6976	99.5062	56.7205	3627	11	3627	18	18	100.0000
gduggal-snapfb	SNP	tv	map_l125_m2_e1	homalt	97.8321	96.2134	99.5062	78.2651	5844	230	5844	29	7	24.1379
ckim-gatk	INDEL	I1_5	map_siren	homalt	99.5056	99.5050	99.5062	78.6204	1206	6	1209	6	4	66.6667
ckim-gatk	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.8615	94.3541	99.5059	29.2939	7604	455	7652	38	38	100.0000
ckim-gatk	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.8615	94.3541	99.5059	29.2939	7604	455	7652	38	38	100.0000
ltrigg-rtg2	SNP	*	func_cds	*	99.6865	99.8678	99.5059	22.3605	18126	24	18125	90	1	1.1111
hfeng-pmm3	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	het	90.9506	83.7500	99.5058	87.7720	603	117	604	3	1	33.3333
bgallagher-sentieon	INDEL	I1_5	lowcmp_AllRepeats_lt51bp_gt95identity_merged	het	99.4743	99.4428	99.5058	77.9305	6068	34	6040	30	14	46.6667
ckim-vqsr	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.8550	94.3417	99.5058	29.2966	7603	456	7651	38	38	100.0000
ckim-vqsr	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.8550	94.3417	99.5058	29.2966	7603	456	7651	38	38	100.0000
ltrigg-rtg1	INDEL	*	lowcmp_SimpleRepeat_quadTR_11to50	*	98.8166	98.1371	99.5056	55.0392	19492	370	19523	97	32	32.9897
ckim-vqsr	INDEL	I1_5	lowcmp_SimpleRepeat_quadTR_11to50	*	98.6815	97.8712	99.5052	68.1063	3816	83	3821	19	14	73.6842
ckim-dragen	INDEL	D1_5	lowcmp_AllRepeats_51to200bp_gt95identity_merged	hetalt	92.4526	86.3337	99.5050	31.4964	1573	249	1608	8	8	100.0000
jli-custom	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged	hetalt	95.1973	91.2471	99.5050	29.3294	1178	113	1206	6	5	83.3333
gduggal-bwafb	INDEL	D1_5	map_l100_m2_e0	homalt	99.1786	98.8543	99.5050	85.3976	604	7	603	3	3	100.0000
ltrigg-rtg2	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	het	99.4163	99.3280	99.5048	58.5822	3252	22	3215	16	13	81.2500
bgallagher-sentieon	INDEL	D1_5	lowcmp_AllRepeats_51to200bp_gt95identity_merged	hetalt	92.5782	86.5532	99.5046	32.0000	1577	245	1607	8	7	87.5000
egarrison-hhga	SNP	ti	map_l250_m2_e1	het	98.4531	97.4235	99.5046	89.2351	3214	85	3214	16	6	37.5000
rpoplin-dv42	INDEL	I1_5	HG002complexvar	het	99.3340	99.1643	99.5043	57.7801	18037	152	18065	90	80	88.8889
jli-custom	INDEL	D6_15	HG002complexvar	het	98.7528	98.0128	99.5040	56.9844	3058	62	3009	15	10	66.6667
asubramanian-gatk	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	het	99.0398	98.5800	99.5039	51.7553	1805	26	1805	9	1	11.1111
rpoplin-dv42	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	98.9414	98.3852	99.5039	60.3844	8225	135	8224	41	36	87.8049
rpoplin-dv42	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	98.9414	98.3852	99.5039	60.3844	8225	135	8224	41	36	87.8049
jlack-gatk	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	94.6208	90.1948	99.5035	32.1162	8380	911	8417	42	38	90.4762
jlack-gatk	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	94.6208	90.1948	99.5035	32.1162	8380	911	8417	42	38	90.4762
ckim-dragen	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	*	99.5527	99.6020	99.5035	66.4780	1001	4	1002	5	3	60.0000
mlin-fermikit	SNP	*	*	*	98.8629	98.2311	99.5029	16.3803	3000602	54032	3000527	14990	12200	81.3876
bgallagher-sentieon	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.5254	93.7213	99.5026	29.5295	7553	506	7601	38	37	97.3684
bgallagher-sentieon	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.5254	93.7213	99.5026	29.5295	7553	506	7601	38	37	97.3684
ltrigg-rtg2	INDEL	I1_5	map_l150_m2_e1	homalt	99.2605	99.0196	99.5025	85.2747	202	2	200	1	0	0.0000
gduggal-bwaplat	SNP	*	lowcmp_SimpleRepeat_homopolymer_6to10	het	93.5407	88.2533	99.5021	62.9815	9782	1302	9792	49	16	32.6531
ltrigg-rtg1	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	hetalt	96.0808	92.8872	99.5018	43.2116	12785	979	12981	65	64	98.4615
dgrover-gatk	INDEL	D6_15	lowcmp_AllRepeats_lt51bp_gt95identity_merged	hetalt	97.9811	96.5062	99.5018	33.8856	6574	238	6591	33	32	96.9697
gduggal-snapfb	SNP	ti	map_l125_m0_e0	homalt	96.3354	93.3645	99.5017	80.4209	4193	298	4193	21	10	47.6190
gduggal-snapvard	SNP	*	segdup	homalt	98.5503	97.6171	99.5016	88.8814	10487	256	10381	52	50	96.1538
jlack-gatk	SNP	*	*	*	99.7200	99.9393	99.5016	23.6335	3052765	1854	3052612	15290	548	3.5840
jmaeng-gatk	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	*	99.3525	99.2040	99.5015	66.2630	997	8	998	5	4	80.0000
gduggal-snapfb	SNP	tv	map_l125_m2_e0	homalt	97.8112	96.1775	99.5014	78.2474	5787	230	5787	29	7	24.1379
astatham-gatk	INDEL	D6_15	lowcmp_AllRepeats_lt51bp_gt95identity_merged	hetalt	97.9355	96.4181	99.5014	33.6275	6568	244	6585	33	32	96.9697
jmaeng-gatk	SNP	tv	*	het	99.5410	99.5807	99.5013	31.3482	589215	2481	589142	2953	52	1.7609

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge