Data#
CassiopeiaTrees#
The main data structure that Cassiopeia uses for all tree-based analyses is the CassiopeiaTree:
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Basic tree object for Cassiopeia. |
Utilities#
We also have several utilities that are useful for working with various data related to phylogenetics:
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Compute the dissimilarity between all samples |
Computes the phylogenetic weight matrix. |
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Builds the character vector of the LCA of a list of character vectors, obeying Camin-Sokal Parsimony. |
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Generates bootstrap character matrices from an allele table. |
Generates bootstrapped character matrices from a character matrix. |
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Converts a networkx graph to a newick string. |