Class rateModel
holds a rate model for a set of alleles
alleleData
an allele data object
edgeGroups
a data.table with four columns: parent, child, edgeID, edgeGroup. EdgeIDs must match those of alleleData object.
siteLabelCriteria
a character vector containing the names of the columns in alleleData@siteInfo to use to label sites
paramEnviron
A locked environment that contains three elements params, paramIndex, and fixed
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