SEMPHY A tool for data-intensive phylogenetic reconstruction
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SEMPHY Tags

phylogenetic systematics Topology File reconstruction Packet Reconstruction Duplex Reconstruction 2D reconstruction Surface Reconstruction Reconstruction phylogenetic tree data-intensive computation phylogenetic footprinting phylogenetic phylogenetic search tool analyze phylogenetic data phylogenetic data phylogeny reconstruction phylogenetic hypothesis cophylogeny reconstruction reconstruction algorithm phylogenetic reconstruction phylogenetic topology reconstruction table reconstruction viewer spreadsheet reconstruction

SEMPHY Description

SEMPHY was developed to be a tool for data-intensive phylogenetic reconstruction. SEMPHY infers phylogenies by Maximum Likelihood, the most established criterion for finding the correct phylogenetic tree. SEMPHY searches for both the most likely topology of the evolutionary tree, and the optimal lengths of its branches. It uses the algorithmic paradigm of Structural EM in a new computational method for phylogenetic inference, making computation both effective and efficient: SEMPHY can handle very large data sets with both good accuracy and reasonable running time. We will refer to the EM procedure as the "SEMPHY step". All uses of SEMPHY are by calling the executable semphy from a command prompt with some parameters: semphy

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