Consensus sequences produced by VEO MPXV Taskforce. MPXV consensus sequence data produce by the VEO taskforce from public INSDC data

All public MPXV INSDC raw read data is systematically analysed to produce a set of uniform variant calls (VCF format) and consensus sequences, using the COVID Sequence Analysis Workflow and the Nanopore Analysis Workflow. Briefly, reads are mapped to the MPXV reference genome, variants are called using LoFreq and annotated using SnpEff. Variant sets are filtered and used to construct consensus sequences. This project holds consensus sequences, which have been constructed from filtered variant calls as per PRJEB45554. Ambiguous base calls in the consensus are marked with Ns. This work is carried out as part of the Versatile emerging infectious disease observatory (VEO) project, a collaboration between: EMBL-EBI Erasmus Medical Center (EMC), Netherlands Eötvös Loránd University (ELTE), Hungary Technical University of Denmark, Denmark