This release adds three new workflows, reworks the organism-specific characterization logic in TheiaCoV and TheiaViral, and makes significant improvements to many workflows. Documentation updates and various bug fixes have also been implemented.

There are several breaking changes in this release that prevent backwards compatibility. We’ve marked these items in the release notes with “breaking change” in the header.

To know about how to how to migrate to this release, please see our migration guide: Migration to PHB v4

🆕 New Workflows

TheiaViral_Panel_PHB

PhyloCompare_PHB

ONT_Barcode_Concatenation_PHB

🚀 Changes to existing workflows

Changes to genomic characterization workflows

All workflows that characterize viral pathogens

All TheiaCoV Workflows

TheiaCoV_FASTA

All TheiaEuk workflows and Cauris_CladeTyper

All TheiaEuk and TheiaProk workflows

All TheiaProk workflows

All TheiaProk workflows and Gambit_Query

TBProfiler_tNGS

All TheiaViral workflows

All ONT workflows

Changes to phylogenetic workflows