TABLE 2.
Published software for analysis of Mycobacterium tuberculosis Oxford Nanopore Technologies sequence dataa
| First author | Year | Reference | Name | Purpose | No. of samples |
|---|---|---|---|---|---|
| Hunt | 2019 | 19 | Mykrobe | Drug resistance prediction, species identification | 5 Mtb clinical isolates |
| Phelan | 2019 | 18 | TBProfiler | Drug resistance prediction, Mtb lineage assignment | 34 replicates of 3 Mtb clinical isolates |
| Teng | 2018 | 16 | Chiron | ONT sequencing base-caller | 1 Mtb clinical isolate |
| Tang | 2020 | 26 | MIRUReader | In silico MIRU-VNTR from long-read Mtb sequencing data | 15 Mtb clinical isolates |
a
All publications listed used M. tuberculosis WGS generated using an ONT MinION device. Abbreviations: Mtb, Mycobacterium tuberculosis; ONT, Oxford Nanopore Technologies; MIRU-VNTR, mycobacterial interspersed repetitive unit-variable number tandem repeat.