Table 1 Number of reads eliminated at different steps of the CANGS DB sequence processing pipeline
Order of steps | Steps | Total no. of sequences | No. of sequences considered | No. of sequences discarded |
|---|---|---|---|---|
1 | Removal of Adapter B | 447,909 | 373,116 | 74,793 |
2 | Filtering sequences with ambiguities | 373,116 | 357,926 | 15,190 |
3 | Removal of singletons | 357,926 | 311,425 | 46,501 |
4 | Grouping of sequences according to bar codes | 311,425 | 306,042 | 5,383 |
5 | Filtering sequences according to length threshold | 306,042 | 305,884 | 158 |
6 | Removal of PCR primers | 305,884 | 282,053 | 23,831 |
7 | Quality filtering | 282,053 | 281,003 | 1,050 |
Total Sequences | 447,909 | 281,003 | 166,906 |