Table 3.
Sequence output and data storage for the two datasets. The number of sequences surviving the common preprocessing stages are shown, whilst classified sequences are based on the targeted then assembly approach within the viral dataset, and the kmer based approach within the nonhuman model dataset. Percentages based on the expected number of PE sequences generated for each sequencing chemistry kit used. Storage (in GB) consists of all fastq and intermediate files including bam and bed format files, generated throughout the analysis.
| Sample | Dataset 1: viral panel | Dataset 2: nonhuman model | ||||
|---|---|---|---|---|---|---|
| Reads within set | % | Data (GB) | Reads within set | % | Data (GB) | |
| Predicted reads | 15,000,000 | — | — | 25,000000 | — | — |
| Sequenced reads | 13,537,917 | 90.3 | 9.1 | 12,734,165 | 50.9 | 13.6 |
| Preprocessing: trimming | 12,223,513 | 81.5 | 15.8 | 11,520,499 | 46.1 | 24.5 |
| Preprocessing: host screen | 11,265,758 | 75.1 | 11,517,217 | 46.1 | ||
| Classified sequences | 8,006,562 | 53.4 | 7.3 | 2,788,450 | 11.2 | 5.5 |
|
| ||||||
| Total storage | 32.2 | 43.6 | ||||