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 ... 336 337 338 339 340 341 342 343 344 ... 1720 1721 » 16951-17000 / 86044 show all
dgrover-gatk	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	98.5115	99.3179	97.7181	73.3548	728	5	728	17	13	76.4706
dgrover-gatk	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged	hetalt	93.8234	88.7991	99.4503	37.7718	2418	305	2533	14	13	92.8571
dgrover-gatk	INDEL	*	lowcmp_SimpleRepeat_homopolymer_6to10	homalt	99.9204	99.9646	99.8762	56.3643	11292	4	11292	14	13	92.8571
dgrover-gatk	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	hetalt	96.6834	94.2486	99.2472	33.8314	1524	93	1714	13	13	100.0000
dgrover-gatk	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	hetalt	96.6211	94.1176	99.2614	36.3011	1552	97	1747	13	13	100.0000
egarrison-hhga	SNP	*	map_l125_m1_e0	homalt	99.8075	99.6924	99.9229	66.3441	16853	52	16853	13	13	100.0000
egarrison-hhga	SNP	*	map_l125_m2_e0	homalt	99.8127	99.7007	99.9250	68.9614	17323	52	17323	13	13	100.0000
egarrison-hhga	SNP	*	map_l125_m2_e1	homalt	99.8144	99.7034	99.9257	69.0000	17480	52	17480	13	13	100.0000
egarrison-hhga	SNP	ti	map_l100_m2_e0	homalt	99.8579	99.7870	99.9289	62.7872	18270	39	18270	13	13	100.0000
egarrison-hhga	SNP	ti	map_l100_m2_e1	homalt	99.8593	99.7891	99.9296	62.7744	18455	39	18455	13	13	100.0000
egarrison-hhga	SNP	ti	map_l150_m1_e0	het	99.1299	98.5449	99.7219	75.0856	12190	180	12190	34	13	38.2353
egarrison-hhga	SNP	ti	map_l150_m2_e0	het	99.1606	98.5948	99.7330	76.2545	12700	181	12700	34	13	38.2353
egarrison-hhga	SNP	ti	map_l150_m2_e1	het	99.1616	98.6016	99.7280	76.3347	12833	182	12833	35	13	37.1429
egarrison-hhga	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	het	98.2514	97.6938	98.8154	81.5275	2584	61	2586	31	13	41.9355
egarrison-hhga	SNP	tv	map_l100_m1_e0	het	99.3126	98.8649	99.7644	63.7472	15242	175	15242	36	13	36.1111
egarrison-hhga	SNP	tv	map_l100_m2_e0	het	99.3093	98.8845	99.7379	65.3478	15601	176	15601	41	13	31.7073
egarrison-hhga	SNP	tv	map_l100_m2_e1	het	99.3132	98.8894	99.7405	65.3943	15761	177	15761	41	13	31.7073
egarrison-hhga	SNP	tv	segdup	homalt	99.7379	99.8765	99.5996	90.3915	3234	4	3234	13	13	100.0000
eyeh-varpipe	INDEL	*	lowcmp_AllRepeats_gt200bp_gt95identity_merged	homalt	58.3333	60.0000	56.7568	97.1604	3	2	21	16	13	81.2500
eyeh-varpipe	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged	homalt	52.6316	50.0000	55.5556	97.1787	2	2	20	16	13	81.2500
egarrison-hhga	INDEL	D1_5	lowcmp_SimpleRepeat_homopolymer_6to10	het	99.6370	99.4177	99.8572	53.8488	14684	86	14686	21	13	61.9048
egarrison-hhga	INDEL	D1_5	map_l100_m2_e1	*	98.0898	97.9887	98.1912	83.7299	1900	39	1900	35	13	37.1429
egarrison-hhga	INDEL	I16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	85.2201	76.0243	96.9466	64.6900	501	158	508	16	13	81.2500
egarrison-hhga	INDEL	I16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	85.2201	76.0243	96.9466	64.6900	501	158	508	16	13	81.2500
egarrison-hhga	INDEL	I16_PLUS	lowcmp_SimpleRepeat_quadTR_11to50	*	87.2649	81.1856	94.3284	73.0491	315	73	316	19	13	68.4211
egarrison-hhga	INDEL	I1_5	lowcmp_AllRepeats_51to200bp_gt95identity_merged	homalt	93.7833	93.2862	94.2857	69.6641	264	19	264	16	13	81.2500
ckim-vqsr	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	hetalt	96.5196	93.9394	99.2455	33.2429	1519	98	1710	13	13	100.0000
ckim-vqsr	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	hetalt	96.4603	93.8144	99.2597	35.4174	1547	102	1743	13	13	100.0000
ckim-vqsr	INDEL	I1_5	HG002complexvar	het	99.6583	99.4392	99.8784	58.1585	18087	102	18064	22	13	59.0909
ckim-vqsr	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged	homalt	90.1734	95.1220	85.7143	76.3021	78	4	78	13	13	100.0000
ckim-vqsr	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	het	98.6451	98.4501	98.8410	73.7492	1588	25	1535	18	13	72.2222
ckim-vqsr	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	98.5230	99.2995	97.7586	67.1946	567	4	567	13	13	100.0000
ckim-vqsr	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	het	98.8279	98.4953	99.1628	76.9045	2422	37	2369	20	13	65.0000
ckim-vqsr	INDEL	I6_15	lowcmp_AllRepeats_51to200bp_gt95identity_merged	*	94.6130	91.3876	98.0745	66.7520	764	72	764	15	13	86.6667
ckim-vqsr	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	het	99.1782	99.2063	99.1501	88.9866	1750	14	1750	15	13	86.6667
ckim-vqsr	SNP	*	lowcmp_SimpleRepeat_diTR_11to50	*	99.7314	99.6182	99.8449	68.2587	9655	37	9655	15	13	86.6667
ckim-vqsr	SNP	*	map_l100_m2_e0	het	85.3365	74.9930	98.9898	84.8848	34796	11603	34788	355	13	3.6620
ckim-vqsr	SNP	*	map_l100_m2_e1	het	85.4225	75.1205	98.9994	84.8723	35230	11668	35222	356	13	3.6517
ckim-vqsr	SNP	ti	HG002compoundhet	het	99.2006	98.5692	99.8402	40.6564	9369	136	9369	15	13	86.6667
ckim-vqsr	SNP	ti	map_l100_m1_e0	*	77.5493	63.5768	99.3932	81.5266	30473	17458	30468	186	13	6.9893
ckim-isaac	INDEL	I6_15	lowcmp_SimpleRepeat_diTR_11to50	hetalt	83.6839	72.6708	98.6312	33.2487	1287	484	1297	18	13	72.2222
ckim-isaac	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	*	96.6757	94.4354	99.0249	47.4574	4056	239	4062	40	13	32.5000
ckim-isaac	SNP	ti	lowcmp_AllRepeats_lt51bp_gt95identity_merged	het	96.7656	94.6334	98.9961	51.3619	16893	958	17059	173	13	7.5145
ckim-isaac	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331	het	94.0520	90.0033	98.4822	69.9861	8220	913	8305	128	13	10.1562
ckim-isaac	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	het	94.0520	90.0033	98.4822	69.9861	8220	913	8305	128	13	10.1562
ckim-vqsr	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	98.8475	99.4543	98.2480	73.3285	729	4	729	13	13	100.0000
ckim-vqsr	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged	hetalt	92.9687	87.2567	99.4808	35.1295	2376	347	2491	13	13	100.0000
ckim-vqsr	INDEL	*	lowcmp_SimpleRepeat_homopolymer_6to10	homalt	99.9026	99.9292	99.8761	56.3916	11288	8	11288	14	13	92.8571
ckim-isaac	INDEL	D16_PLUS	lowcmp_AllRepeats_51to200bp_gt95identity_merged	hetalt	80.5197	68.3077	98.0488	51.2195	666	309	804	16	13	81.2500
ckim-isaac	INDEL	I16_PLUS	HG002complexvar	homalt	50.1099	36.8932	78.0822	66.5138	114	195	114	32	13	40.6250

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge