Search Results for "epidemiology"

Viral subtypes or clades represent clusters among isolates from the global population of a defined species. Subtypification is relevant for studies on virus epidemiology, evolution and pathogenesis. In this sense, Covidex was developed as an open source alignment-free machine learning subtyping tool. It is a shiny app that allows fast and accurate classification of viral genomes in pre-defined clusters. If more than 1000 sequences are loaded the tool will run in multithread mode. Capable of classifying 16000 genome sequences in less than a minute (AMD Ryzen 7 1700 8-core Processor 3 GHz) For a Web-based version of the app (only for small datasets: 100 seqs max) please go to http://covidex.unlu.edu.ar If you use Covidex please consider citing the following preprint: https://biorxiv.org/cgi/content/short/2020.08.21.261347v1 If you think my work is useful you can buy me a coffee! ...

episerve is an R package providing functionalities for handling, visualizing and analyzing epidemics data through a R interface.

Hackout 2: GRINDER is a hackathon that will focus on the development of Graphical Resources for Infectious Disease Epidemiology in R. It will take place in London, UK, on 10-13 February 2015. It is a follow-up event to Hackout, which took place in January 2013 in the MRC Centre for Outbreak Analysis and Modelling, Imperial College London, UK.

TextHunter is being developed to support researchers who need to extract information from large volumes of free text. For example, in epidemiology, clinical researchers often need to review large numbers of electronic medical records to identify variables that describe the patient (symptomatology, medication status etc). This often a tedious process, increasing the difficulty and cost of research. To address this, TextHunter provides two key tools: - An efficient annotation interface to help rapidly code large volumes of documents - A means to automatically generate information extraction algorithms, so that manual review of the entire document set is unnecessary Designed to run on desktop hardware, TextHunter is already being used in the UK Mental Health Biomedical Research centre (http://brc.slam.nhs.uk/) to speed research in several major projects. ...

...The Laboratorium will allow to achieve significant observations, both from a scientific and an educational point of view: by ensuring acceptable integration of the experimentation in the course of life of the hosting place (initially, it will be hosted by the Medical School of Grenoble), in relation to best practices and habits of students, teachers and the institution. LOE (Laboratorium Of Epidemiology) est l'objet d'un projet de recherche et d'un projet d'enseignement. C'est un jeu de simulation qui n'est pas limité à un seul écran d'ordintaur puisque les étudiants interagissent avec des personnages non seulement au travers d’une plateforme Web, mais parfois «physiquement» avec leur téléphone portable et par e-mail.

The Matlab files described here refers the simulation described in the paper : “Rule-Based Model of Chronic Disease Epidemiology: Elderly Depression as an Illustration”, under submission in Plos One. Installation and user guide including example is inserted in the global .zip file (Appendix 5.pdf)

The STIanafor is a tool for spatio-temporal data vizualization, analysis and forecast of incidence of sexually-transmitted diseases and drug resistance of pathogens in the Russian Federation. Currently supports gonorrhoea (N. gonorrhoeae) and syphilis (T. pallidum). A set of real data for testing is provided.

Data curation tool to maintain variables for the National Survey of Health and Development managed by the Lifelong Health and Ageing Unit of the Medical Research Council.

The NetEpi project is developing open-source, network-enabled tools for epidemiology and public health practice.

Software implementing various forms of the Reed-Frost model for epidemiology simulation purposes. This project includes deterministic and stochastic implementations, as well as, extensions to Reed-Frost.

Genetic epidemiology library from London School of Hygiene and Tropical Medicine.

Here we introduce a Genomic Epidemiology Ontology (GenEpiO) that covers vocabulary necessary to identify, document and research food-borne pathogens and associated outbreaks. We envision various subdomains including genomic laboratory testing, specimen and isolate metadata, and epidemiological case investigations. The project files are currently hosted at https://github.com/GenEpiO/genepio/ .