mem (version 1.3)

memtrend: Methods for influenza trend calculation

Description

Function memtrend is used to calculate the two parameters for defining the current influenza trend. This method is based on the Moving Epidemics Method (MEM) used to monitor influenza activity in a weekly surveillance system.

Usage

memtrend(i.data, i.seasons = 10)

Arguments

i.data

Matrix of input data.

i.seasons

Maximum number of seasons to use.

Value

• memtrend returns a list with two objects, the first one is the parameter used in the calculations (param.seasons) and the second one (trend.thresholds) is a matrix 1x2 with the Ascending (Delta) and Descending parameters (Eta). rlll{ 1 Delta - Ascending parameter. 2 Eta - Descending parameter. }

Details

Input data is a matrix containing rates that represent historical influenza surveillance data. It can start and end at any given week (tipically at week 40th), and rates can be expressed as per 100,000 inhabitants (or per consultations, if population is not available) or any other scale. The i.seasons parameter indicates how many seasons are used for calculating thresholds. A value of -1 indicates the program to use as many as possible. If there are less than this parameter, the program used all seasons avalaible. There are three different states for trend, to determine the state, the current rate and the difference of the current and last weekly rate are needed: rlll{ 2 Ascending - When the weekly rate is above the epidemic threshold and the difference of the current and last weekly rate is higher than Delta OR this is the first time the rate is above the epidemic threshold. 3 Descending - When the weekly rate is above the epidemic threshold and the difference of the current and last weekly rate is lower than Eta OR this is the first time the rate is below the epidemic threshold after having been above it. 1 Stable - Otherwise. }

References

Vega T., Lozano J.E. (2004) Modelling influenza epidemic - can we detect the beginning and predict the intensity and duration? International Congress Series 1263 (2004) 281-283. Vega T., Lozano J.E. (2012) Influenza surveillance in Europe: establishing epidemic thresholds by the Moving Epidemic Method. Influenza and Other Respiratory Viruses, DOI:10.1111/j.1750-2659.2012.00422.x.

Examples

library(mem)

## Castilla y Leon Influenza Rates data 
data(flucyl)
## Finds the timing of the first season: 2001/2002
trend<-memtrend(flucyl)
trend