BSR-Based Allele Calling Algorithm
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Updated
Apr 26, 2024 - HTML
BSR-Based Allele Calling Algorithm
Epidemiological surveillance in Python
A Disease Outbreak Assistance system using machine learning and Artifitial Intelligence
cg/wgMLST allele calling software, schema evaluation and allele distance estimation for outbreak reserch.
In this repo. , "Cost Effective Lazy Forward Selection" Algorithm is implemented from scratch in python with only numpy library.
R scripts used in M Cavallaro, L Dyson, MJ Tildesly, D Todkill & MJ Keeling (2023) Spatio-temporal surveillance and early detection of SARS-CoV-2 variants of concern. J. R. Soc. Interface. 20: 20230410. 20230410.
Implementation of Complex Networks Algorithms
rancovr: Cluster detection in R with RAndom Neighbourhood COVeRing
metagenomics pipeline supporting The UnO Project for identifying pathogens in common across outbreak samples
This repository contains the risk model function of the disease model in virbrio infections and how can be modeled to estimate the attributable rates
Software supporting M. Cavallaro, et al., Cluster detection with random neighbourhood covering: Application to invasive Group A Streptococcal disease. PLoS Comput Biol 18(11): e1010726 (2022) https://doi.org/10.1371/journal.pcbi.1010726.
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