BacteriophageHostPrediction

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BacteriophageHostPrediction

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Code and database related to our manuscript "Predicting bacteriophage hosts based on receptor-binding proteins"

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# Predicting bacteriophage hosts based on sequences of annotated receptor-binding proteins
This repository contains the code and database related to our manuscript "Predicting bacteriophage hosts based on sequences of annotated receptor-binding proteins", published in Scientific Reports (January 2021). This research is funded by a PhD fellowship strategic basic research from the Research Foundation – Flanders (FWO), grant number 1S69520N.

Access the research paper via the following link: https://www.nature.com/articles/s41598-021-81063-4

More specifically, this repository contains the following files:
* RBP_database.csv contains the collected RBP sequences as described in Materials & Methods.

* RBP_functions.py is a Python script containing all the necessary manually implemented functions for the various analyses carried out in this study.

* RBP_alignment.jl is a Julia script used to compute pairwise alignments between the sequences to explore the diversity and assess redundancy in the database.

* RBP_alignmentscores.txt is .txt file containing the alignment scores if you prefer not to compute them with the provided Julia script.

* RBP_host_prediction.ipynb is an IPython notebook containing all the analyses, model constructions and evaluations described in Materials & Methods.

Important notice: the code in this repository is provided as is and is no longer under active maintenance. Thank you for understanding.

BacteriophageHostPrediction

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