Last Updated: 2025-09-23

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MPXV Workspace Reference Material for Clade Ib - TheiaCoV_Illumina_PE only

Terra.Bio Resources for PHB v2.0.0 and later for MPXV analysis - Lineage B.1 (part of Clade IIb)

• Terra.Bio Input JSONs

MPXV Workspace Reference Material Recommendations (PHB v2.0.0 and later versions)

MPXV Workspace Reference Material Recommendations (PHB v1.0.0 - v1.3.0)

MPXV Workspace Reference Material Recommendations (PHVG v2.3.2)

Terra Resources for MXPV Characterization (PHB and PHVG)

• Terra.Bio Workspace Data Element TSVs
• MPXV Reference Files
• MPXV Primer Scheme BED Files

FAQs

• Can this same workflow be utilized if a tiled amplicon approach was not utilized, i.e. there are no primer sequenced to trim?
• When I put the assembly in Nextclade, I get way more mutations than what TheiaCoV says! Help!

Additional Resources

• MPXV virus multiplexed PCR amplicon sequencing (PrimalSeq) V3
• MPXV analysis with TheiaCoV walkthrough video