Table 2.
Bioinformatics analysis of the community standard sample using Im‐cpl protocol
| Library preparation protocol | Im‐cpl | Sol‐RT | |
|---|---|---|---|
| Community standard sample | Total input [ng] | 50 | |
| E. coli O157:H7 | 39 (78%) | ||
| Salmonella Enteritidis | 10 (20%) | ||
| Listeria monocytogenes | 1 (2%) | ||
| Total yield [reads] | 151 877 | 121 037 | |
| Failed reads for analysis | 16 331 (10.8%) | 37 228 (30.8%) | |
| Mean read length [nt] | 537 | 129 | |
| Bioinformatics pipelines (MG‐RAST*) | Escherichia | 12 164 (55.7%) | 158 (69.0%) |
| Salmonella | 4158 (19.0%) | 32 (14.0%) | |
| Listeria | 2036 (9.3%) | 10 (4.4%) | |