Phenotrex is a component of the PhenDB web server, which performs phenotypic trait prediction on
user-uploaded metagenomic bins. To try out phenotrex with PhenDB’s pre-trained and curated set of
trait models, genomes may thus simply be submitted to PhenDB.
Basic Usage
To use a trained phenotrex model MY_TRAIT.pkl for prediction of a phenotypic trait with a
given genome genome.fna:
This yields a tabular file containing a prediction regarding the presence of the trait (YES or NO),
as well as a confidence value the model ascribes to this prediction, ranging from 0.5 to 1.0.
Advanced Usage
For training, evaluation and explanation of phenotrex models on user data, please refer to the
full usage tutorial here.
