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Fix link & email address and add two new packages #31

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36 changes: 16 additions & 20 deletions Epidemiology.md
Original file line number Diff line number Diff line change
Expand Up @@ -2,15 +2,15 @@
name: Epidemiology
topic: Epidemiology
maintainer: Thibaut Jombart, Matthieu Rolland, Hugo Gruson
email: thibautjombart@gmail.com
version: 2024-02-04
source: ihttps://github.com/cran-task-views/Epidemiology/
email: hugo.gruson+ctv@normalesup.org
version: 2024-03-18
source: https://github.com/cran-task-views/Epidemiology/
---

Contributors (in alphabetic order): Neale Batra, Solène Cadiou, Christopher
Endres, Rich FitzJohn, Hugo Gruson, Andreas Handel, Michael Höhle, Thibaut
Jombart, Joseph Larmarange, Sebastian Lequime, Alex Spina, Tim Taylor, Sean Wu,
Achim Zeileis.
Contributors (in alphabetic order): Neale Batra, Solène Cadiou, Dylan Dijk,
Christopher Endres, Rich FitzJohn, Hugo Gruson, Andreas Handel, Michael Höhle,
Thibaut Jombart, Joseph Larmarange, Sebastian Lequime, Alex Spina, Tim Taylor,
Sean Wu, Achim Zeileis.

## Overview

Expand Down Expand Up @@ -120,7 +120,8 @@ task view, which has a dedicated section on
risks adjusting for unmeasured confounding and misclassification of the
exposure/outcome, or both. It follows the bias analysis methods and examples
from the book by Lash T.L., Fox M.P., and Fink A.K. "Applying Quantitative
Bias Analysis to Epidemiologic Data", ('Springer', 2009).
Bias Analysis to Epidemiologic Data", ('Springer', 2009). This tool is also
provided as an API via the `r pkg("apisensr")` package.
- `r pkg("mem")`: The Moving Epidemic Method, created by T Vega and JE Lozano
([2012](https://doi.org/10.1111/j.1750-2659.2012.00422.x),
[2015](https://doi.org/10.1111/irv.12330)), allows the weekly assessment of
Expand All @@ -129,17 +130,8 @@ task view, which has a dedicated section on
indicators, timing and shape with past epidemics and across different
regions or countries with different surveillance systems. Also, it gives a
measure of the performance of the method in terms of sensitivity and
specificity of the alert week.
- `r pkg("memapp")`: The Moving Epidemic Method, created by T Vega and JE
Lozano ([2012](https://doi.org/10.1111/j.1750-2659.2012.00422.x),
[2015](https://doi.org/10.1111/irv.12330)), allows the weekly assessment of
the epidemic and intensity status to help in routine respiratory infections
surveillance in health systems. Enables the comparison of different epidemic
indicators, timing and shape with past epidemics and across different
regions or countries with different surveillance systems. It also gives a
measure of the performance of the method in terms of sensitivity and
specificity of the alert week. 'memapp' is a web application created in the
Shiny framework for the `r pkg("mem")` R package.
specificity of the alert week. This tool is also provided as a shiny app with
the `r pkg("memapp")` package.
- `r pkg("riskCommunicator")`: Estimates flexible epidemiological effect
measures including both differences and ratios using the parametric
G-formula developed as an alternative to inverse probability weighting. It
Expand Down Expand Up @@ -187,7 +179,11 @@ task view, which has a dedicated section on
- `r pkg("cfr")`: Estimate the severity of a disease and ascertainment of cases,
as discussed in
[Nishiura et al. (2009)](https://doi.org/10.1371/journal.pone.0006852).

- `r pkg("EpiSignalDetection")`: Exploring epidemiological time series for
signal detection via methods described in [Salmon et al.
(2016)](https://doi.org/10.18637/jss.v070.i10). This package also provides a
shiny interface and automated report generation.

#### Individual-level data

- `r pkg("modelSSE")`: Comprehensive analytical tools are provided to
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