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agdamsbo 2019-11-19 09:48:03 +01:00
parent a40092718b
commit 2fcf02d37e
3 changed files with 22 additions and 8 deletions
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2
DESCRIPTION
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@ -1,7 +1,7 @@
Package: daDoctoR
Type: Package
Title: FUNCTIONS FOR HEALTH RESEARCH
Version: 0.1.0.9033
Version: 0.1.0.9034
Author: c(person("Andreas", "Gammelgaard Damsbo", email = "agdamsbo@pm.me", role = c("cre", "aut")))
Maintainer: Andreas Gammelgaard Damsbo <agdamsbo@pm.me>
Description: I am a Danish medical doctor involved in neuropsychiatric research.

22
R/euler_plot.R
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@ -1,24 +1,26 @@
#' Creates Euler model from list of identifier numbers.
#'
#' Calculates overlaps and uses eulerr package to create Euler/Venn-diagrams. Use plot() to create diagram.
#' Calculates relative overlaps and uses eulerr package to create Euler/Venn-diagrams. Use plot() to create diagram.
#' Combined with an evolved calculate.overlap() from the VennDiagram library.
#' Up to five (5) dimensions. Limit set by the complexity of combinations. euler() supports more.
#' @param x list of variables included. Has to be vectors of identifier numbers.
#' @param total data.frame, vector or integer to calculate or use as total number of participants for percentage calculation.
#' @param shape same as for euler(). These includes c("circle","ellipse").
#' @keywords overlap
#' @export
euler_plot<-function (x,shape)
euler_plot<-function (x,total,shape="ellipse")
{
library(eulerr)
sh<-shape
tot<-total
if (1 == length(x)) {
overlap <- list("A"=x)
}
else if (2 == length(x)) {
overlap <- list("A" = x[[1]], "B" = x[[2]], "A&B" = intersect(x[[1]],
x[[2]]))
x[[2]]))
}
else if (3 == length(x)) {
A <- x[[1]]
@ -204,10 +206,20 @@ euler_plot<-function (x,shape)
"A&B&C&D&E"= a31)
}
else {
flog.error("Invalid size of input object", name = "VennDiagramLogger")
flog.error("Invalid size of input object", name = "LazyOverlapCalculater")
stop("Invalid size of input object")
}
eul <- euler(unlist(overlap, use.names=T),shape = sh)
if (class(tot)=="vector"){
n_all<-length(tot)}
else if ((class(tot)=="integer"|class(tot)=="numeric")&length(tot)==1) {
n_all<-tot}
else if (class(tot)=="data.frame"){
n_all<-nrow(tot)
}
ov<-lapply(overlap,function(x,all=n_all,dec=1){
round(length(x)/all*100,dec)
})
eul <- euler(unlist(ov, use.names=T),shape = sh)
return(eul)
}

6
man/euler_plot.Rd
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@ -4,15 +4,17 @@
\alias{euler_plot}
\title{Creates Euler model from list of identifier numbers.}
\usage{
euler_plot(x, shape)
euler_plot(x, total, shape = "ellipse")
}
\arguments{
\item{x}{list of variables included. Has to be vectors of identifier numbers.}
\item{total}{data.frame, vector or integer to calculate or use as total number of participants for percentage calculation.}
\item{shape}{same as for euler(). These includes c("circle","ellipse").}
}
\description{
Calculates overlaps and uses eulerr package to create Euler/Venn-diagrams. Use plot() to create diagram.
Calculates relative overlaps and uses eulerr package to create Euler/Venn-diagrams. Use plot() to create diagram.
Combined with an evolved calculate.overlap() from the VennDiagram library.
Up to five (5) dimensions. Limit set by the complexity of combinations. euler() supports more.
}