TransRate contents for Homo sapiens

S6.1: TransRate results for Homo sapiens assemblies

S6.1: TransRate results for Homo sapiens assemblies

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assembly	n_seqs	smallest	largest	n_bases	mean_len	n_under_200	n_over_1k	n_over_10k	n_with_orf	mean_orf_percent	n90	n70	n50	n30
trinity	365427	184	24438	286479420	783.95018	15	64020	630	60743	50.81538	275	613	1840	3423
oases	1316143	100	25843	843235288	607.44172	292691	207203	656	166287	42.08886	335	671	1230	2362
trans-abyss	1762439	100	23693	437845625	166.09343	1260396	59698	153	57877	51.92248	284	657	1943	23693
soap-trans-default	1087869	100	23820	241236376	133.58194	837283	27502	133	26571	48.01834	287	773	3391	23820
rna-spades	668019	52	29250	294083262	382.28565	212315	49805	165	39056	46.25425	243	439	1117	2963
spades	353728	56	42266	177477612	491.71804	37174	30999	137	25430	46.12757	251	385	700	1618
idba-tran	281371	200	15954	138699791	492.94274	0	23480	20	24193	52.45984	241	353	566	1054
bridger	277892	201	26339	206635529	743.58214	0	43164	413	38683	45.10419	280	552	1386	3163
binpacker	27957	200	24003	72918290	2608.23014	0	22604	202	20082	42.56574	1406	2481	3511	4770
shannon	162486	200	18602	117068086	720.48106	0	31290	54	31225	55.69782	255	612	1446	2495

assembly	n10	gc	bases_n	proportion_n	fragments	fragments_mapped	p_fragments_mapped	good_mappings	p_good_mapping	bad_mappings	potential_bridges	bases_uncovered	p_bases_uncovered	contigs_uncovbase	p_contigs_uncovbase
trinity	6328	0.49558	0	0.0	96093116	29490892	0.3069	27629395	0.28753	1861497	0	169122292	0.59035	188789	0.51663
oases	5980	0.4992	0	0.0	96093116	7057921	0.07345	5960249	0.06203	1097672	0	792648161	0.94001	1249221	0.94915
trans-abyss	23693	0.48114	0	0.0	96093116	20998514	0.21852	20289902	0.21115	708612	0	277144158	0.63297	1494412	0.84792
soap-trans-default	23820	0.46977	395745	0.00164	96093116	63665576	0.66254	56721404	0.59028	6944172	0	78823472	0.32675	749802	0.68924
rna-spades	29250	0.47111	922694	0.00314	96093116	39125385	0.40716	37309742	0.38827	1815643	0	63077887	0.21449	208774	0.31253
spades	4604	0.47786	41951	0.00024	96093116	76534778	0.79646	70453007	0.73317	6081771	0	5535605	0.03119	132600	0.37486
idba-tran	2602	0.4848	0	0.0	96093116	61031354	0.63513	46713951	0.48613	14317403	0	3129664	0.02256	111398	0.39591
bridger	6435	0.48917	0	0.0	96093116	33158968	0.34507	31026439	0.32288	2132529	0	86937480	0.42073	136026	0.48949
binpacker	7469	0.51491	0	0.0	96093116	26204786	0.2727	25028134	0.26046	1176652	0	61071898	0.83754	26318	0.94137
shannon	4397	0.50031	0	0.0	96093116	24945759	0.2596	20914074	0.21764	4031685	0	58885232	0.503	64880	0.3993

assembly	contigs_uncovered	p_contigs_uncovered	contigs_lowcovered	p_contigs_lowcovered	contigs_segmented	p_contigs_segmented	CRBB_hits	n_contigs_with_CRBB	p_contigs_with_CRBB	rbh_per_reference	n_refs_with_CRBB	p_refs_with_CRBB	cov25	p_cov25	cov50
trinity	365427	1.0	365427	1.0	69099	0.18909	126931	126931	0.34735	0.71255	50331	0.28254	33655	0.18893	24342
oases	1316143	1.0	1316143	1.0	40017	0.0304	559858	559858	0.42538	3.14287	80247	0.45048	20391	0.11447	11732
trans-abyss	1762439	1.0	1762439	1.0	91837	0.05211	288800	288800	0.16386	1.62123	83098	0.46649	51352	0.28827	33169
soap-trans-default	1087869	1.0	1087869	1.0	88696	0.08153	119058	119058	0.10944	0.66835	55532	0.31174	15255	0.08564	7593
rna-spades	668019	1.0	668019	1.0	87943	0.13165	97589	97589	0.14609	0.54783	51082	0.28676	18108	0.10165	10450
spades	353728	1.0	353728	1.0	60600	0.17132	88378	88378	0.24985	0.49613	49137	0.27584	14409	0.08089	7278
idba-tran	281371	1.0	281371	1.0	50897	0.18089	88660	88660	0.3151	0.49771	47869	0.26872	16136	0.09058	7451
bridger	277892	1.0	277892	1.0	54470	0.19601	72799	72799	0.26197	0.40867	40098	0.2251	13064	0.07334	7769
binpacker	27957	1.0	27957	1.0	4324	0.15467	26506	26506	0.9481	0.1488	11170	0.0627	9875	0.05544	8113
shannon	162486	1.0	162486	1.0	39922	0.2457	77424	77424	0.4765	0.43463	34346	0.19281	950	0.00533	284

assembly	p_cov50	cov75	p_cov75	cov85	p_cov85	cov95	p_cov95	reference_coverage	score	optimal_score	cutoff	weighted
trinity	0.13665	16553	0.09292	13445	0.07548	9283	0.05211	0.22744	0.05833	0.1318	0.41903	0.0
oases	0.06586	5813	0.03263	3913	0.02197	1990	0.01117	0.0881	0.00086	0.01793	0.14592	0.0
trans-abyss	0.1862	19245	0.10804	14695	0.08249	9778	0.05489	0.26219	0.00592	0.10588	0.10494	0.0
soap-trans-default	0.04262	4065	0.02282	3036	0.01704	2043	0.01147	0.09183	0.01664	0.26752	0.03215	0.0
rna-spades	0.05866	5711	0.03206	4314	0.02422	2932	0.01646	0.11119	0.13771	0.23201	0.01482	0.0
spades	0.04086	3349	0.0188	2339	0.01313	1443	0.0081	0.08042	0.25164	0.39665	0.17687	0.0
idba-tran	0.04183	2622	0.01472	1476	0.00829	649	0.00364	0.08326	0.19574	0.25039	0.39326	0.0
bridger	0.04361	4508	0.02531	3504	0.01967	2424	0.01361	0.085	0.1009	0.14093	0.14934	0.0
binpacker	0.04554	5966	0.03349	5045	0.02832	3881	0.02179	0.07303	0.00946	0.06956	0.36908	0.0
shannon	0.00159	101	0.00057	67	0.00038	43	0.00024	0.00373	0.03201	0.06634	0.31735	0.0