Table 3 Output comparison across tools
Criteria | GenTB | TB-Profiler | Mykrobe |
|---|---|---|---|
1) Output | Â | Â | Â |
 Type | Heatmap and barplot | Overview tables | Overview table |
 Download | All intermediate and output files (JSON) | Yes (CSV) | Yes (JSON) |
2) Genotypic predictions | Probability | Binary | Binary |
3) Error rate | Yes | N.A. | N.A. |
4) Resistance variants | Variant by drug | Variant by drug incl. fraction of mutant/wild-type allele | Variant by drug incl. depth of mutant and wild-type alleles |
5) Unknown variants | Yes, in all genes | Yes, in candidate resistance genes | No |
6) M. tuberculosis Lineage | Â | Â | Â |
 Main lineage | Yes | Yes | Yes |
 Sublineage | Yes | Yes | Yes |
 Typing scheme | Yes | No | No |
7) Quality metrics | Trimming and contamination report | No. of reads, Percentage of reads mapped | No |