reorder() in the latticeExtra library

Hello all, thanks for your time and help. Below are my commands, and it
generates a really nice plot, however I am not happy with the reorder()
function. I would like the order to be the same as they appear in the
genotype variable  "genotype <- c("CJ1450 NW 4/25/12","CJ1450 BAL
4/25/12","CJ1450 NW 4/27/12","CJ1450 BAL 4/27/12","CJ1721 NW
4/27/12","CJ1721 BAL 4/27/12","CJ1721 NW 4/29/12","CJ1721 BAL 4/29/12" )"
and not as it is currently coded.

Is there any way to turn off the reorder, or set it up so the values appear
in the order above, thank you again!

(I am open to all suggestions)

JD


genotype <- c("CJ1450 NW 4/25/12","CJ1450 BAL 4/25/12","CJ1450 NW
4/27/12","CJ1450 BAL 4/27/12","CJ1721 NW 4/27/12","CJ1721 BAL
4/27/12","CJ1721 NW 4/29/12","CJ1721 BAL 4/29/12" )
#paste("Animal", as.roman(1:8), sep = "-") 
plant.height <- c(0.001173003, 0.001506127, 0.001361596, 0.001922572,
0.034272147, 0.030466017, 0.001654299, 0.001071724)
SE <- c(0.000444123, 0.000290096, 0.000372844, 0.00197687, 0.033945128,
0.035231568, 0.001094518, 0.000423545) 
lower <- plant.height - SE; upper <- plant.height + SE 
x <- data.frame(group = genotype, lower = lower, est = plant.height, upper =
upper)

library(latticeExtra) 
segplot(reorder(genotype, est) ~ lower + upper, data = x, draw.bands =
FALSE, centers = est, segments.fun = panel.arrows, ends = "both", angle =
90, length = 0, par.settings = simpleTheme(pch = 19, col = 1), xlab =
expression("nucleotide diversity " %+-% " sd"), panel = function(x, y, z,
...) { 
panel.abline(h = z, col = "grey", lty = "dashed") 
panel.abline(v = 14.20, col = "grey") 
panel.segplot(x, y, z, ...)}) 

Wouldn't you just define genotype as a factor with the desired sequence of levels and remove the call to reorder?

David Winsemius, MD
Alameda, CA, USA

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Hi,
Try this:
genotype1<-factor(genotype,levels=c("CJ1450 NW 4/25/12","CJ1450 BAL 4/25/12", "CJ1450 NW\n4/27/12", 
"CJ1450 BAL 4/27/12", "CJ1721 NW 4/27/12", "CJ1721 BAL\n4/27/12",
"CJ1721 NW 4/29/12", "CJ1721 BAL 4/29/12") )

segplot(genotype1 ~ lower + upper, data = x, draw.bands =
FALSE, centers = est, segments.fun = panel.arrows, ends = "both", angle =
90, length = 0, par.settings = simpleTheme(pch = 19, col = 1), xlab =
expression("nucleotide diversity " %+-% " sd"), panel = function(x, y, z,
...) {
panel.abline(h = z, col = "grey", lty = "dashed")
panel.abline(v = 14.20, col = "grey")
panel.segplot(x, y, z, ...)}) 
A.K.





----- Original Message -----
From: JDINIS <jorgemdinis at gmail.com>
To: r-help at r-project.org
Cc: 
Sent: Friday, November 2, 2012 11:04 PM
Subject: [R] reorder()  in the latticeExtra library

Hello all, thanks for your time and help. Below are my commands, and it
generates a really nice plot, however I am not happy with the reorder()
function. I would like the order to be the same as they appear in the
genotype variable? "genotype <- c("CJ1450 NW 4/25/12","CJ1450 BAL
4/25/12","CJ1450 NW 4/27/12","CJ1450 BAL 4/27/12","CJ1721 NW
4/27/12","CJ1721 BAL 4/27/12","CJ1721 NW 4/29/12","CJ1721 BAL 4/29/12" )"
and not as it is currently coded.

Is there any way to turn off the reorder, or set it up so the values appear
in the order above, thank you again!

(I am open to all suggestions)

JD


genotype <- c("CJ1450 NW 4/25/12","CJ1450 BAL 4/25/12","CJ1450 NW
4/27/12","CJ1450 BAL 4/27/12","CJ1721 NW 4/27/12","CJ1721 BAL
4/27/12","CJ1721 NW 4/29/12","CJ1721 BAL 4/29/12" )
#paste("Animal", as.roman(1:8), sep = "-") 
plant.height <- c(0.001173003, 0.001506127, 0.001361596, 0.001922572,
0.034272147, 0.030466017, 0.001654299, 0.001071724)
SE <- c(0.000444123, 0.000290096, 0.000372844, 0.00197687, 0.033945128,
0.035231568, 0.001094518, 0.000423545) 
lower <- plant.height - SE; upper <- plant.height + SE 
x <- data.frame(group = genotype, lower = lower, est = plant.height, upper =
upper)

library(latticeExtra) 
segplot(reorder(genotype, est) ~ lower + upper, data = x, draw.bands =
FALSE, centers = est, segments.fun = panel.arrows, ends = "both", angle =
90, length = 0, par.settings = simpleTheme(pch = 19, col = 1), xlab =
expression("nucleotide diversity " %+-% " sd"), panel = function(x, y, z,
...) { 
panel.abline(h = z, col = "grey", lty = "dashed") 
panel.abline(v = 14.20, col = "grey") 
panel.segplot(x, y, z, ...)}) 



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Thanks David, I used you suggestion and it worked fine, please see below for what I did.

segplot(reorder(factor(genotype), genotype) ~ lower + upper

Perhaps a missing close-paren ............. ^
Although reading this as a formatted posting such as you sent might cause a registration error.

On Nov 3, 2012, at 2:47 AM, David Winsemius wrote:

define genotype as a factor

David Winsemius, MD
Alameda, CA, USA