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 ... 1406 1407 1408 1409 1410 1411 1412 1413 1414 ... 1720 1721 » 70451-70500 / 86044 show all
jli-custom	SNP	tv	map_l150_m1_e0	het	98.7145	98.4020	99.0291	72.7212	6835	111	6834	67	19	28.3582
jli-custom	SNP	tv	map_l150_m2_e0	het	98.7416	98.4694	99.0154	74.3882	7141	111	7140	71	19	26.7606
jli-custom	SNP	tv	map_l150_m2_e1	het	98.7581	98.4894	99.0283	74.4439	7237	111	7236	71	19	26.7606
ndellapenna-hhga	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	homalt	93.2488	96.4929	90.2158	52.0822	3054	111	3052	331	137	41.3897
ltrigg-rtg2	INDEL	I16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	90.2206	83.1563	98.5965	64.1509	548	111	562	8	8	100.0000
ltrigg-rtg2	INDEL	I16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	90.2206	83.1563	98.5965	64.1509	548	111	562	8	8	100.0000
ndellapenna-hhga	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	*	93.2318	91.4352	95.1004	84.7221	1185	111	1184	61	36	59.0164
ndellapenna-hhga	SNP	ti	map_siren	homalt	99.8244	99.7072	99.9418	51.3860	37805	111	37806	22	20	90.9091
mlin-fermikit	INDEL	I16_PLUS	lowcmp_SimpleRepeat_diTR_11to50	*	82.7354	76.8750	89.5631	81.5825	369	111	369	43	43	100.0000
qzeng-custom	INDEL	D16_PLUS	HG002complexvar	*	86.2026	93.2441	80.1500	61.6049	1532	111	1603	397	75	18.8917
qzeng-custom	INDEL	I16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	*	78.9525	73.1884	85.7021	53.5402	303	111	1001	167	136	81.4371
qzeng-custom	INDEL	I1_5	map_l100_m0_e0	het	77.6186	65.9509	94.3020	93.0987	215	111	331	20	8	40.0000
qzeng-custom	INDEL	I1_5	map_l150_m1_e0	het	76.1696	62.8763	96.5909	95.0884	188	111	255	9	6	66.6667
hfeng-pmm3	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	99.2278	99.3890	99.0672	63.8278	18055	111	18055	170	157	92.3529
hfeng-pmm3	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	99.2278	99.3890	99.0672	63.8278	18055	111	18055	170	157	92.3529
jli-custom	INDEL	*	map_siren	*	98.8895	98.5020	99.2800	80.4395	7299	111	7308	53	17	32.0755
hfeng-pmm2	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged	*	93.9873	91.5781	96.5267	61.0569	1207	111	1195	43	42	97.6744
gduggal-snapfb	SNP	*	segdup	het	98.5769	99.3590	97.8069	92.1233	17206	111	17215	386	16	4.1451
gduggal-snapvard	INDEL	*	map_l150_m2_e1	*	85.0852	92.2863	78.9265	90.9345	1328	111	1794	479	153	31.9415
gduggal-snapfb	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	90.9278	97.6646	85.0604	50.5657	4642	111	4646	816	787	96.4461
gduggal-snapplat	INDEL	D1_5	lowcmp_SimpleRepeat_diTR_51to200	het	19.2870	17.7778	21.0762	81.7661	24	111	47	176	45	25.5682
gduggal-snapplat	INDEL	D1_5	map_l100_m2_e0	homalt	89.1147	81.8331	97.8188	86.9556	500	111	583	13	1	7.6923
gduggal-snapvard	INDEL	D6_15	map_l100_m2_e1	*	65.5947	59.6364	72.8758	83.1683	164	111	223	83	59	71.0843
ghariani-varprowl	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	het	73.1919	91.6667	60.9150	62.8898	1221	111	1225	786	754	95.9288
asubramanian-gatk	SNP	tv	segdup	homalt	98.1636	96.5720	99.8085	89.8001	3127	111	3127	6	6	100.0000
bgallagher-sentieon	INDEL	D16_PLUS	lowcmp_AllRepeats_51to200bp_gt95identity_merged	*	94.9665	94.7838	95.1498	73.0488	2017	111	2001	102	87	85.2941
bgallagher-sentieon	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331	het	99.0727	99.1931	98.9527	67.4865	13646	111	13605	144	128	88.8889
bgallagher-sentieon	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	het	99.0727	99.1931	98.9527	67.4865	13646	111	13605	144	128	88.8889
asubramanian-gatk	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	homalt	96.8292	99.0334	94.7210	60.8998	11373	111	11986	668	500	74.8503
rpoplin-dv42	INDEL	I6_15	HG002complexvar	hetalt	95.0851	90.9240	99.6454	54.5161	1112	111	1124	4	4	100.0000
raldana-dualsentieon	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	het	93.0934	87.8423	99.0123	88.6586	802	111	802	8	6	75.0000
ckim-vqsr	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.7195	94.2517	99.3201	38.1124	1820	111	2045	14	14	100.0000
ckim-vqsr	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.7195	94.2517	99.3201	38.1124	1820	111	2045	14	14	100.0000
dgrover-gatk	SNP	tv	*	homalt	99.9813	99.9706	99.9920	19.9848	377012	111	376997	30	24	80.0000
ckim-isaac	SNP	tv	lowcmp_SimpleRepeat_triTR_11to50	homalt	95.5795	91.5332	100.0000	25.9259	1200	111	1200	0	0
ckim-isaac	INDEL	D1_5	map_l125_m0_e0	het	80.1370	67.8261	97.9079	90.6968	234	111	234	5	1	20.0000
ckim-isaac	INDEL	D1_5	map_l150_m2_e1	homalt	70.6494	54.8387	99.2701	83.9013	136	112	136	1	1	100.0000
egarrison-hhga	SNP	tv	map_l150_m1_e0	het	99.0220	98.3876	99.6646	73.3388	6834	112	6834	23	9	39.1304
egarrison-hhga	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	homalt	94.6938	96.4613	92.9899	50.7135	3053	112	3051	230	72	31.3043
egarrison-hhga	INDEL	I1_5	lowcmp_AllRepeats_51to200bp_gt95identity_merged	hetalt	92.5832	87.5139	98.2759	42.2886	785	112	798	14	12	85.7143
ckim-isaac	SNP	*	func_cds	het	99.4778	98.9965	99.9638	21.3254	11049	112	11049	4	0	0.0000
ckim-vqsr	INDEL	D16_PLUS	*	hetalt	96.6957	94.2059	99.3207	38.1824	1821	112	2047	14	14	100.0000
ckim-vqsr	INDEL	D16_PLUS	HG002compoundhet	*	95.5217	95.2157	95.8298	35.3889	2229	112	2229	97	95	97.9381
dgrover-gatk	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331	het	99.2708	99.4280	99.1141	69.5332	19467	112	19467	174	16	9.1954
dgrover-gatk	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	het	99.2708	99.4280	99.1141	69.5332	19467	112	19467	174	16	9.1954
hfeng-pmm2	INDEL	D16_PLUS	lowcmp_AllRepeats_lt51bp_gt95identity_merged	*	97.8162	96.8548	98.7969	68.2925	3449	112	3449	42	28	66.6667
jpowers-varprowl	INDEL	I1_5	map_siren	hetalt		0.0000	0.0000	0.0000	0	112	0	0	0
ciseli-custom	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	het	56.4570	44.2786	77.8761	77.2177	89	112	88	25	20	80.0000
ciseli-custom	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	*	85.0321	87.0220	83.1312	60.9052	751	112	754	153	72	47.0588
ciseli-custom	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	61.9472	80.3853	50.3893	46.9303	459	112	453	446	414	92.8251

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge