We introduce GenPhylo, a Python module that simulates nucleotide sequence
data along a phylogeny avoiding the restriction of continuous-time Markov
processes. GenPhylo uses directly a general Markov model and therefore
naturally incorporates heterogeneity across lineages. We solve the challenge of
generating transition matrices with a pre-given expected number of
substitutions (the branch length information) by providing an algorithm that
can be incorporated in other simulation software.

Cet article explore les excursions dans le temps et leurs implications.

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