apc.plot.data.sums {apc}

This plot shows sums of data matrix by age, period or cohort.

Description

Produces plots showing age, period and cohort sums. As a default this is done both for responses and dose, giving a total of six plots.

Usage

apc.plot.data.sums(apc.data.list,data.type="a",
			average=FALSE,keep.incomplete=TRUE,apc.index=NULL,
			type="o",log="",main.outer=NULL,main.sub=NULL)

Arguments

apc.data.list

List. See apc.data.list for a description of the format.

data.type

Optional. Character. "r","d","m","a" if sums are computed for responses, dose, (mortality rates), all. Rates are computed as responses/doses. Default is "a".

average

Optional. Logical. Sums are reported if FALSE, Averages are reported if TRUE. Default is FALSE.

keep.incomplete

Optional. Logical. If true perform calculation for incomplete sequences by removing NA. If false incomplete sequences are NA. See example in apc.data.sums. Default=TRUE.

apc.index

Optional. List. See apc.get.index for a description of the format. If not provided this is computed.

type

Optional plot argument. Character. "o" if overlaid points and lines. "l" if lines. "p" if points. Default is "o".

log

Optional plot argument. Character. "y" if y-scale is logarithmic, otherwise "". Default is "".

main.outer

Optional. Character. Main title for plot, to be shown in outer margin. Default is NULL, in which case a title is generated internally.

main.sub

Optional. Titles for sub plots. Use with data.type "r","d","m". For data.type "a" use default. Default is NULL, in which case a title is generated internally.

Details

The data sums are computed using apc.data.sums. Then plotted as requested.

Note

Use apc.data.sums if numerical values needed.

Author(s)

Bent Nielsen <[e-mail]> 15 Aug 2018 (15 Dec 2013)

References

Martinez Miranda, M.D., Nielsen, B. and Nielsen, J.P. (2015) Inference and forecasting in the age-period-cohort model with unknown exposure with an application to mesothelioma mortality. Journal of the Royal Statistical Society A 178, 29-55. Download: Article, Nuffield DP.

See Also

The example below uses Japanese breast cancer data, see data.Japanese.breast.cancer

Examples

#####################
#  	EXAMPLE with artificial data
#  	Generate a 3x4 matrix in "AP" data.format with the numbers 1..12
#	Then make a data list
#	Then plot data sums.
#	Note only 3 plots are made as there are no doses

m.data  	<- matrix(data=seq(length.out=12),nrow=3,ncol=4)
m.data
data.list	<- apc.data.list(m.data,"AP")
apc.plot.data.sums(data.list)					 
apc.plot.data.sums(data.list,average=TRUE)
apc.plot.data.sums(data.list,keep.incomplete=FALSE)					 

#####################
#	EXAMPLE with Japanese breast cancer data
#	Make a data list
#	Then plot data sums for both responses and doses.

data.list	<- data.Japanese.breast.cancer()	
apc.plot.data.sums(data.list)					

# 	Or plot data sums for responses only

apc.plot.data.sums(data.list,data.type="r")		

#####################
#	EXAMPLE with asbestos data
#	Miranda Martinex, Nielsen and Nielsen (2013).
#	This is Figure 1,a-c 

data.list	<- data.asbestos()	
apc.plot.data.sums(data.list,type="l")