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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[[Category:Software]][[Category:Genomics]][[Category:Biology]][[Category:Alignment]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|phyloTF2}}
 
|{{#vardefine:app|phyloTF2}}

Latest revision as of 18:22, 21 August 2022

Description

phyloTF2 website  

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