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.
module spider phyloTF2 to find out what environment modules are available for this application.
- HPC_PHYLOTF2_DIR - installation directory
- HPC_PHYLOTF2_BIN - executable directory