IndicatorSheet: Create a simple graphical report of the most important SCC...

In VZoche-Golob/UdderHealthMonitor: Tools for monitoring the udder health of dairy cow herds using data of the Dairy Herd Improvement Tests

Description

This function calculates the most important udder health indicators that are based on the monthly dairy herd improvement test somatic cell counts (SCC) according to the DLQ and http://www.milchqplus.de and produces a concise graphical report on a single page in pdf-format. The indicators are calculated for the 13 recent months for which data is provided.

Usage

IndicatorSheet(inputFile = NULL, inputType = "adis",
  Farm = "SomeDairyHerd", out_dir = NULL, out_window = FALSE,
  return_results = FALSE)

Arguments

inputFile	Character of length 1. Full path to the data file to be used for monitoring.
inputType	Character of length 1. One of c("adis", "herde").
Farm	A character string, the 'name' used for the herd / farm in the report.
out_dir	Optional character of length 1. Full path to the directory where the report file should be produced. If not specified the directory of inputFile is used.
out_window	Logical of length 1. Should the report be shown in the standard plot display? (Default is FALSE)
return_results	Logical of length 1. Should the data shown in the report be returned as a data.frame? (Default is FALSE).

Details

See prepare_PCstart for the required ADIS input file and prepare_HerdeMLP for the required input file from a HERDE backup The definitions of the indicators are given in the package vignette ‘UdderHealthMonitor::User Guide’.

Value

A grafical report in pdf-format is always produced in the out_dir directory. If return_results = TRUE, the calculated values of the indicators are also returned as a data.frame with one row per month and the columns:

Month

Test month

LowSCC

Percentage of cows without mastitis

LactNI

Lactational new infection rate

LactCure

Lactational cure rate

Chronic

Percentage of cows with chronic mastitis

NoCure

Percentage of cows with low chances of cure

DryNI

Dry period new infection rate

DryCure

Dry period cure rate

HeiferMast

Heifer mastitis rate

NULL invisible otherwise.

Note

Currently different 'AE's are ignored and all animals of one herd are analysed together.

References

Visit http://www.milchqplus.de for further descriptions of the udder health indicators.

Have a look at V. Zoche, W. Heuwieser, and V. Kroemker, "Risk-based monitoring of udder health. A review.", Tierärztliche Praxis. Ausgabe G, Grosstiere/Nutztiere, vol. 39, no. 2, pp. 88–94, 2011. and these slides for information about monitoring the udder health.

VZoche-Golob/UdderHealthMonitor documentation built on May 9, 2019, 9:42 p.m.