Difference between revisions of "PhyloTF2"
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(Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|phyloTF2}} |{{#vardefine:url|https://github.com/davidrasm/phyloTF2}} <!--CON...") |
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Revision as of 20:55, 3 June 2022
Description
phyloTF2 is a package for efficient likelihood-based phylodynamic learning using birth-death-sampling models. phyloTensorFlow is built on top of TensorFlow 2 using the Keras API. Statistical inference or model training is performed using gradient descent algorithms such as ADAM to optimize the likelihood of a tree under a birth-death-sampling model. The fitness of any lineage in a phylogenetic tree can depend on reconstructed ancestral features (states). A fitness mapping function is used to translate a lineage’s ancestral features into expected fitness.
Environment Modules
Run module spider phyloTF2 to find out what environment modules are available for this application.
System Variables
- HPC_PHYLOTF2_DIR - installation directory
- HPC_PHYLOTF2_BIN - executable directory