TransRate contents for Mus musculus

S6.1: TransRate results for Mus musculus assemblies

S6.1: TransRate results for Mus musculus 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	63305	188	15758	78726179	1243.59831	1	21795	126	20433	52.20767	413	1643	2820	4137
oases	243196	100	18273	188947779	748.28751	45184	51779	122	49619	45.35795	367	850	1622	2909
trans-abyss	135402	100	16948	105153277	719.90618	57350	29698	101	29452	53.7886	525	1425	2533	4028
soap-trans-default	101745	100	15709	53611903	452.44688	56002	12592	36	11464	51.45431	377	1345	2678	4482
rna-spades	76473	38	19132	73461333	908.39895	25161	19355	166	15544	43.57814	516	1780	3046	4652
spades	44567	56	20853	51575587	1150.33119	2894	13089	137	10611	44.85287	416	1501	2941	4582
idba-tran	55639	200	13519	45526327	818.24488	0	12278	26	12358	54.28147	301	723	1501	2673
bridger	54182	201	20000	66954024	1235.72448	0	18257	131	16136	49.56206	424	1570	2771	4149
binpacker	2503	201	14728	6514820	2602.80463	0	2037	19	1734	38.85579	1442	2478	3467	4619
shannon	53069	200	10156	52948200	997.72372	0	16908	2	17010	55.04317	362	1075	1879	2838

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	6606	0.48697	0	0.0	43321537	21355514	0.49295	19760893	0.45614	1594621	0	40916647	0.51973	44073	0.6962
oases	5849	0.4865	0	0.0	43321537	2960141	0.06833	2738087	0.0632	222054	0	171759185	0.90903	240588	0.98928
trans-abyss	8329	0.48646	0	0.0	43321537	12300009	0.28392	11473815	0.26485	826194	0	66074600	0.62836	113535	0.8385
soap-trans-default	15709	0.48141	45099	0.00084	43321537	35915638	0.82905	32157618	0.7423	3758020	0	6391643	0.11922	72708	0.71461
rna-spades	8650	0.48165	228409	0.00311	43321537	20881436	0.48201	18827607	0.4346	2053829	0	24392244	0.33204	49536	0.64776
spades	7474	0.47995	77265	0.0015	43321537	37040783	0.85502	33518805	0.77372	3521978	0	690894	0.0134	22143	0.49685
idba-tran	4819	0.48121	0	0.0	43321537	29771013	0.68721	22269956	0.51406	7501057	0	778920	0.01711	29273	0.52612
bridger	6916	0.48641	0	0.0	43321537	20102437	0.46403	18330692	0.42313	1771745	0	27694556	0.41364	36775	0.67873
binpacker	7300	0.48151	0	0.0	43321537	14288620	0.32983	13148363	0.30351	1140257	0	3913128	0.60065	1949	0.77867
shannon	4455	0.48061	0	0.0	43321537	18998883	0.43856	16326086	0.37686	2672797	0	22602906	0.42689	22675	0.42727

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	63305	1.0	63305	1.0	4122	0.06511	40074	40074	0.63303	0.38826	21138	0.2048	16531	0.16016	13639
oases	243196	1.0	243196	1.0	1996	0.00821	192399	192399	0.79113	1.86406	31858	0.30866	2706	0.02622	1559
trans-abyss	135402	1.0	135402	1.0	6524	0.04818	77403	77403	0.57165	0.74992	28832	0.27934	21436	0.20768	16659
soap-trans-default	101745	1.0	101745	1.0	5210	0.05121	45911	45911	0.45124	0.44481	24130	0.23378	8062	0.07811	5217
rna-spades	76473	1.0	76473	1.0	5133	0.06712	35065	35065	0.45853	0.33973	20654	0.20011	8397	0.08135	6288
spades	44567	1.0	44567	1.0	2618	0.05874	26827	26827	0.60195	0.25991	19340	0.18738	6613	0.06407	4854
idba-tran	55639	1.0	55639	1.0	3041	0.05466	38052	38052	0.68391	0.36867	21786	0.21107	8572	0.08305	5081
bridger	54182	1.0	54182	1.0	3810	0.07032	32404	32404	0.59806	0.31395	19458	0.18852	7929	0.07682	5708
binpacker	2503	1.0	2503	1.0	596	0.23811	2407	2407	0.96165	0.02332	1513	0.01466	1414	0.0137	1235
shannon	53069	1.0	53069	1.0	4240	0.0799	40555	40555	0.76419	0.39292	17669	0.17119	110	0.00107	29

assembly	p_cov50	cov75	p_cov75	cov85	p_cov85	cov95	p_cov95	reference_coverage	score	optimal_score	cutoff	weighted
trinity	0.13214	11092	0.10747	9843	0.09536	7534	0.07299	0.21834	0.06185	0.22136	0.54229	0.0
oases	0.0151	921	0.00892	698	0.00676	427	0.00414	0.02211	0.00094	0.01921	0.32342	0.0
trans-abyss	0.1614	12633	0.1224	10982	0.1064	8362	0.08102	0.24728	0.01108	0.11552	0.50493	0.0
soap-trans-default	0.05054	3804	0.03686	3235	0.03134	2352	0.02279	0.09539	0.0348	0.40138	0.44936	0.0
rna-spades	0.06092	4557	0.04415	3899	0.03778	2928	0.02837	0.10624	0.04163	0.17718	0.39823	0.0
spades	0.04703	3602	0.0349	3128	0.03031	2360	0.02286	0.08457	0.19088	0.37953	0.42502	0.0
idba-tran	0.04923	2832	0.02744	2114	0.02048	1245	0.01206	0.09159	0.13495	0.29426	0.49723	0.0
bridger	0.0553	4134	0.04005	3487	0.03378	2574	0.02494	0.09933	0.07952	0.18076	0.34003	0.0
binpacker	0.01197	1010	0.00979	899	0.00871	735	0.00712	0.0154	0.02307	0.13036	0.34806	0.0
shannon	0.00028	3	3.0e-05	3	3.0e-05	2	2.0e-05	0.00107	0.05116	0.18394	0.5276	0.0