Table 1 Features of GenoMycAnalyzer
Feature | Description |
|---|---|
Quality control | ● Provide various quality control statistics, including sequencing depth and mapping status |
Identification | ● Identify MTBC and NTM at species levels based on Kraken2 ● Provide improved species prediction based on a custom-built database |
Molecular typing | ● Provide lineage prediction based on genome-wide SNPs ● Provide spoligotype based on the direct repeat locus |
Genotypic DST | ● Provide gDST results for 15 antituberculosis drugs using the WHO mutational catalogue ● Detection of large deletions associated with drug resistance |
Visualization | ● Detected RAVs are visualized in a Circos plot, along with the sequencing depth of the corresponding gene ● Integrate the IGV browser to visualize and review the detected variants |
Report | ● Provide pdf formatted report with sample details, assay details, and genomic characteristics ● Users can edit additional comment in the report |
Flexibility | ● Users can modify the analysis parameters ● Users can add newly discovered RAVs to the knowledge database |