In ptaconet/malamodpkg: R scripts - modeling the risk of residual malaria transmission at a micro-scale

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require(emo)

R scripts to model the risk of residual malaria transmission at a micro-scale

How can we predict where and when people are likely to contract malaria in a near future r emo::ji("mosquito") r emo::ji("sun") r emo::ji("rain") ?

How can we make the results of these predictions easily accessible to anyone, including the authorities in charge of malaria prevention ?

Through a series of vignettes, we propose a transparent, reproducible and as much as possible reusable method to model the risk of residual malaria transmission at a micro-scale and communicate the predictions. Our study areas are two distinct 2500 km^2^ wide rural regions of Western Africa. We use epidemiological, entomological and sociological data collected during the 3 years-long REACT project over these two areas, in conjunction with environmental data mostly free of charge and available at global scale.

Our work uses exclusively free and open source softwares/libraries. All the scripts are developed using the R programming language and rely on many, many packages developed by the huge R community. We attempt to develop generic scripts (e.g. land cover mapping, extraction of spatial-temporal environmental data at sampling points) that can be reused in various contexts, so do not hesitate to have a look at the vignettes even if you are not working in the public health research field !

Our vignettes :

• Automatic import of spatial-temporal environmental data and extraction within buffers around sampling points
• Other vignettes to come [TODO...]

Side vignette :

• Land cover mapping at different nomenclature levels built on a combined random forest and object based image analysis approach using multisource data (HRS, VHRS and DEM) TODO rmd ...

This work is part of my PhD project realized at the MIVEGEC unit of the French Research Institute for Sustainable Development.

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ptaconet/malamodpkg documentation built on Feb. 12, 2020, 3:45 p.m.