BayesHammer: Bayesian clustering for error correction in single-cell sequencing

BMC Genomics

Table 3 Assembly results, multi-cell E.coli dataset (contigs of length ≥ 200 are used).

Statistics	BayesHammer	BayesHammer (sca_old)	Hammer, expanded	Hammer, no expansion	Hammer, no expansion (sca_old)	Hammer (sca_old)	Quake
	Multi-cell E. coli, 600 coverage, reference length 4639675, reference GC content 50.79%
# contigs (≥ 500 bp)	103	102	119	238	213	115	165
# contigs (≥ 1000 bp)	91	90	99	192	171	96	156
Total length (≥ 500 bp)	4641845	4641790	4626515	4730338	4817457	4627067	4543682
Total length (≥ 1000 bp)	4633361	4633306	4611745	4696966	4787210	4612838	4537565
# contigs	122	121	146	325	303	141	204
Largest contig	285113	285113	218217	210240	210240	218217	165487
Total length	4647325	4647270	4635156	4756088	4844208	4635349	4555015
N50	132645	132645	113608	59167	73113	113608	58777
NG50	132645	132645	113608	59669	80085	113608	57174
NA50	132645	132645	113608	59167	73113	113608	58777
NGA50	132645	132645	113608	59669	80085	113608	57174
# misassemblies	3	3	4	4	7	5	0
# misassembled contigs	3	3	4	4	7	5	0
Misassembled contigs length	44466	44466	57908	15259	30901	60418	0
Genome covered (%)	99.440	99.440	99.383	98.891	98.925	99.385	98.747
GC (%)	50.78	50.77	50.77	50.73	50.71	50.77	50.75
N's (%)	0.00000	0.00000	0.00000	0.00000	0.00000	0.00000	0.00000
# mismatches per 100 kbp	8.55	8.55	13.76	44.46	44.33	13.76	1.21
# indels per 100 kbp	0.99	0.99	1.14	0.76	0.97	1.14	0.20
# genes	4254+45 part	4254+45 part	4245+56 part	4196+72 part	4204+68 part	4245+56 part	4174+62 part

ISSN: 1471-2164