- beastime: BEAST MCMC Run-Time Estimator
- chikmsptt: CHIKV Mutation Spotter
- GEDEX: GISAID EPI_SET Data Contributors Extractor
- LSBFILT: Lab-Specific Bias FILter (LSBFILT)
- PyPNanoQC: A Python(Plotly)-based QC pipeline for Oxford Nanopore Technologies sequencing data
- vigeas: VIral GEnome ASsembly pipelines for WGS