Materials of FutureTDM project

• UpdatedAug 22, 2017
• Jupyter Notebook

Arbovirus and dengue data from Puerto Rico

• UpdatedMar 10, 2019
• R

• UpdatedNov 5, 2019
• R

This repository includes the codes and data used in the study: "Spatio-temporal clusters and patterns of spread of dengue, chikungunya, and Zika in Colombia", by Laís Picinini Freitas, Mabel Carabali, Mengru Yuan, Gloria I. Jaramillo-Ramirez, Cesar Garcia Balaguera, Berta N. Restrepo, and Kate Zinszer.

• UpdatedAug 30, 2022
• R

I noticed that traditional methods to predict a disease outbreak was by performing sentiment analysis on Twitter posts and Google Search terms. Unfortunately, these methods were inadequate, as Twitter and Google is not popular in all countries. So, I created a system to model and predict outbreaks without the need for social media. The system wa…

• UpdatedNov 11, 2017
• Jupyter Notebook

Viral genome assembly pipeline for WGS using ONT

• UpdatedOct 22, 2022
• Shell

Zika Phylogeography

• UpdatedNov 19, 2017
• HTML

This repository includes the codes and data used for the study: "Identifying hidden Zika hotspots in Pernambuco, Brazil: A spatial analysis", by: Laís P Freitas, Rachel Lowe, Andrew E Koepp, Sandra A Valongueiro, Molly Dondero, Leticia J Marteleto.

• UpdatedJun 1, 2022
• R

AedesWebview on examples. Interactive Brazilian map for some diseases

• UpdatedDec 9, 2017
• Scala

Python package to optimize mosquito traps' positioning in field trials.

• UpdatedJan 4, 2024
• Python

Nanopore base caller based on original Chiron adding Dropout and SRU

• UpdatedNov 16, 2017
• Python

API NODE for improved J48 Classification Tree for the Prediction of Dengue, Chikungunya or Zika.

• UpdatedNov 28, 2019
• HTML

Base de dados estudo de sindrome congenita

• UpdatedSep 6, 2023
• HTML

We proposed and implemented a model of how an epidemic spreads based on the interactions recorded, among humans. The system was assumed as a Markov process where the hidden variable is the state of the person, transition between the states was done by the interactions. These interactions will be detected by using RFID technology in smart phones.

• UpdatedDec 28, 2017
• Python

• UpdatedMay 3, 2017
• JavaScript

R script used for the paper "Space-time dynamics of a triple epidemic: dengue, chikungunya and Zika clusters in the city of Rio de Janeiro", by Laís P. Freitas, Oswaldo G. Cruz, Rachel Lowe and Marilia S. Carvalho.

• UpdatedJun 1, 2022

Phylogeographic analyses of ZIKV

• UpdatedApr 8, 2021
• HTML

Dataviz around the Zika virus outbreaks in 2018/2019. Demo of web scraping using Python (lxml)

• UpdatedFeb 2, 2017
• Jupyter Notebook

Github repository for the manuscript entitled "High dose African lineage Zika virus is associated with severe adverse fetal outcomes in pregnant rhesus macaques"

• UpdatedFeb 4, 2022

Overcoming uncertainty to enable estimation and forecasting of Zika virus transmission

• UpdatedApr 3, 2018
• JavaScript