Get promoters of phage genomes
PhagePromoter is a python script that predicts promoter sequences in phage genomes, using machine learning models. Two different datasets were used to developed two models: the ANN model was built using a dataset with 26 features and 2400 examples (800 positives and 1600 negatives) and the SVM model was created using a dataset with 19 features and 3200 examples (800 positives and 2400 negatives). Each example represents a sequence of 65 base pairs of a phage genome. The positive examples correspond to phage sequences already identified as promoters.
Inputs:
Advanced options:
Outputs:
This tool outputs two files: a FASTA file and a table in HTML, with the locations, sequence, score and type (recognized by host or phage RNAP) of the predicted promoters. In addition, the tool will output a GenBank file with the predicted promoters as features.
Requirements: