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Formats

Multilocus data is a list of sequence alignments, which is contained in DATA block of a nexus file. Commands use multilocus data are listed:

  • MCMC_SEQ: Co-estimation of reticulate phylogenies (ILS & hybridization) and gene trees from multiple independent loci.

Here is an example:

Mandatory info:

  • number of taxon in the sequence alignments: "ntax=#numTaxon"
  • the name and the length of sequences of the locus: "[#locusName, #seqLen]" or  "[#locusName, #seqLen, #extraInfo]"
  • the sequence alignment: "#speciesName    sequence" 
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