CPythia version 1.2.0

Retrained predictor and updated structure of the repository for easier integration in RAxML-NG

See release notes of PyPythia v1.2.0 for detailed changes.

CPythia version 1.1.0

We retrained Pythia with additional MSAs, the larger set of training data consists of:

11 108 DNA MSAs
979 Protein MSAs
460 Morphological MSAs
= 12 547 MSAs, all empirical data of course :-)

The new predictor shows an improved accuracy:

Mean absolute error: 0.07 (previously 0.09)
Mean absolute percentage error: 1.7% (previously 2.5%)

Pythia is trained on two additional features: the patterns-over-site ration and a an entropy-like measurement based on the number and frequency of patterns in the MSA

Update Predictor to Pythia version 1.0.0

New, improved LightGBM predictor

CPythia version 0.0.0

the original Random Forest Predictor as described in the publication, matching PyPythia version 0.0.0