Table 1. Comparison of hybrid assemblies obtained from various long-read correction tools.

Assembly	No. of contigs	Largest contig	Total length	NGA50	No. of misassemblies	No. of mismatches a	No. of indels a	Genome fraction (%)	No. of genes	Overall runtime
Escherichia coli K12 MG1655 (genome size = 4636675 bp, No. of genes = 4497)
Abyss	82	285832	4646776	129004	2	2.92	0.41	99.48	4426	60m
LoRDEC + runCA	47	4188310	4791407	686189	43	3.30	0.65	100.00	4494	15h 46m
LSC + runCA	29	1954248	4769525	572337	21	2.26	0.54	100.00	4492	21h 35m
PBcR pipeline	12	1889858	4667990	572347	8	2.03	0.35	99.91	4484	4h 35m
ECTools + runCA	12	4644297	4695577	956540	14	9.33	1.21	99.99	4494	11h 21m
Proovread + runCA	6	3523306	4674021	949310	8	5.73	0.32	100.00	4494	5h 42m
Pedobacter heparinus DSM2366 (genome size = 5167383 bp, No. of genes = 4339)
Abyss	44	1484728	5201989	403999	0	1.22	0.23	99.93	4309	90m
LoRDEC + runCA	30	1269137	5205089	792703	5	18.54	2.95	99.87	4329	2h 30m
PBcR pipeline	126	549480	5037466	73978	2	3.95	1.36	96.62	4075	15h 34m
ECTools + runCA	4	5164134	5177937	3895884	1	10.12	1.61	99.99	4335	8h 28m
Proovread + runCA	13	1561045	5181637	1269500	3	9.25	0.54	99.98	4329	12h 58m
Meiothermus ruber DSM1279 (genome size = 3097457 bp, No. of genes = 3105)
Newbler	44	509970	3071504	136299	0	0.33	3.65	99.16	3046	10m
LoRDEC + runCA	25	1082032	3138975	646109	10	2.71	20.64	99.97	3099	2h 52m
PBcR pipeline	6	1927798	3096677	1927798	0	4.20	18.37	99.83	3093	23m
ECTools + runCA	1	3095849	3095849	3095849	0	1.29	3.97	99.95	3101	7h 7m
Proovread + runCA	65	295928	3089235	88185	2	2.40	7.45	99.64	3043	3h 47m

^a No. of mismatches/indels per 100 Kbp