I want to include a plot into some MS Word document using the reporteRs library.
Here is how I include my plot :
doc = addPlot(doc,
fun = function() plot(
km.as.one,
mark.time=TRUE,
conf.int=FALSE,
cex=1,
col="blue",
xlab = "Délai en années", ylab = "Pourcentage",
lty=1:3,
),
vector.graphic = TRUE, width = 5, height = 4,
par.properties = parProperties(text.align = "center")
)
My problem is that I would like to add some error bars, customize the axis and maybe add the title, by adding something like following :
axis(1, at = seq(0, 36, by = 6))
with (data=summary.km.as.one, expr=errbar(time, surv, upper, lower, add=TRUE, pch=0.5, cap=0.02))
I have to write this outside of the plot statement, but I couldn't find how to write it in the anonymous function.
Is it even possible to write several statements in an anonymous function ?
If yes, what is the right way, and if not, is there any workaround ?
Just add braces { } and you can add multiple lines:
doc = addPlot(doc,
fun = function() {
# line 1
# line 2
# etc...
},
vector.graphic = TRUE, width = 5, height = 4,
par.properties = parProperties(text.align = "center")
)
Related
I'm trying to use the legend function in R. I want the label to read $\alpha = 1, \beta = 2$, so I tried using
legend("topleft", c(expression(alpha = 1, beta = 2)))
But that did not do the trick. Any advice?
What if I wanted my label to read $Gamma(\alpha = 1, \beta = 2)$? I tried
legend("topleft", c(paste("Gamma( ", expression(alpha = 1, beta = 2))))
We can place everything within the expression itself
plot(1)
legend("topleft", expression(alpha~"= 1, "~beta~" = 2"))
If we need Gamma(
legend("topleft", expression(Gamma*"("*alpha~"= 1, "~beta~" = 2)"))
If we need the word Gamma
legend("topleft", expression("Gamma("*alpha~"= 1, "~beta~" = 2)"))
Another option is str2lang, which allows using variables
{
one<-1
two<-2
greek<-"Gamma"
greek1<-"alpha"
greek2<-"beta"
note <- paste0(greek,"*'('*",greek1,"*' = ",one,", '*",greek2,"*' = ",two,")' " )
plot(1)
legend("topleft", legend=str2lang(paste0("paste(",note,")") ) )
}
I am using plot_roc_components function from rmda package. The definition of it has plot_generic() function. But, I am not able to find definition of this function. Why is it so?
The reason for it to see if there is an option for legend.size(). plot_roc_components gives me figure, however, I want to change the legend size. There is an option for legend.position, but not for its font size.
Could you please explain?
Thanks!
https://github.com/mdbrown/rmda/blob/57553a4cf5b6972176a0603b412260e367147619/R/plot_functions_sub.R
You were looking in one file but it was defined in another file.
plot_generic<- function(xx, predictors, value, plotNew,
standardize, confidence.intervals,
cost.benefit.axis = TRUE, cost.benefits, n.cost.benefits,
cost.benefit.xlab, xlab, ylab,
col, lty, lwd,
xlim, ylim, legend.position,
lty.fpr = 2, lty.tpr = 1,
tpr.fpr.legend = FALSE,
impact.legend = FALSE,
impact.legend.2 = FALSE,
population.size = 1000,
policy = policy, ...){
## xx is output from get_DecisionCurve,
## others are directly from the function call
#save old par parameters and reset them once the function exits.
old.par<- par("mar"); on.exit(par(mar = old.par))
xx.wide <- reshape::cast(xx, thresholds~model, value = value, add.missing = TRUE, fill = NA)
xx.wide$thresholds <- as.numeric(as.character(xx.wide$thresholds))
if(is.numeric(confidence.intervals)){
val_lower <- paste(value, "lower", sep = "_")
val_upper <- paste(value, "upper", sep = "_")
xx.lower <- cast(xx, thresholds~model, value = val_lower, add.missing = TRUE, fill = NA)
xx.upper <- cast(xx, thresholds~model, value = val_upper, add.missing = TRUE, fill = NA)
xx.lower$thresholds <- as.numeric(as.character(xx.lower$thresholds))
xx.upper$thresholds <- as.numeric(as.character(xx.upper$thresholds))
}
# adjust margins to add extra x-axis
if(cost.benefit.axis) par(mar = c(7.5, 4, 3, 2) + 0.1)
#set default ylim if not provided
#initial call to plot and add gridlines
When using chartSeries, by default it also shows on the top left of the plot the last value. Is there any way to prevent it from doing it?
When adding a new TA with addTA, you can avoid the last value on the plot by setting the argument legend = "", but only if you're making a new plot for the TA. If the TA is on a previously plotted graphic, it'll show the last value regardless of what you put in the legend argument.
getSymbols ("AAPL", src = "google")
chartSeries(AAPL)
What can I use here to prevent it from printing the last value on the plot?
addTA(EMA(Cl(AAPL)), on = 1, legend = "")
This still prints the last value on the top left of the plot. The weird part is that it doesn't do it if you're plotting on a new plot like this:
addTA(EMA(Cl(AAPL)), legend = "")
Is it like this by default, or is there something I can do to get around it?
The last value is shown by default (yes, annoyingly). You'll likely have to modify the source code to remove the last number showing in addTA.
I don't use addTA, but rather add_TA and chart_Series, because I think they look much better (second generation charts for quantmod). Here is a solution that removes the last number from showing for the add_TA version. But you must be willing to modify the source code.
In add_TA, you'll need to modify approximately lines 56-60 of the source:
Replace the text.exp, which is this:
# this is inside add_TA:
if (is.na(on)) {
plot_object$add_frame(ylim = c(0, 1), asp = 0.15)
plot_object$next_frame()
text.exp <- expression(text(x = c(1, 1 + strwidth(name)),
y = 0.3, labels = c(name, round(last(xdata[xsubset]),
5)), col = c(1, col), adj = c(0, 0), cex = 0.9,
offset = 0, pos = 4))
plot_object$add(text.exp, env = c(lenv, plot_object$Env),
with these modifications:
if (is.na(on)) {
plot_object$add_frame(ylim = c(0, 1), asp = 0.15)
plot_object$next_frame()
text.exp <- expression(text(x = c(strwidth(name)), # <- affects label on the subchart
y = 0.3, labels = name, col = c(col), adj = c(0), cex = 0.9,
offset = 1, pos = 4))
plot_object$add(text.exp, env = c(lenv, plot_object$Env),
expr = TRUE)
...
and assign this modified code to a new variable, called say add_TA.mine:
add_TA.mine <- function (x, order = NULL, on = NA, legend = "auto", yaxis = list(NULL,
NULL), col = 1, taType = NULL, ...)
{
lenv <- new.env()
lenv$name <- deparse(substitute(x))
lenv$plot_ta <- function(x, ta, on, taType, col = col, ...) {
xdata <- x$Env$xdata
....
[all the code for the rest of the function with modifications]....
}
}
plot_object
}
Now, just run the code with the modified function
library(quantmod)
getSymbols("AAPL")
environment(add_TA.mine) <- environment(get("add_TA", envir = asNamespace("quantmod")))
assignInNamespace(x = "add_TA", value = add_TA.mine, ns = "quantmod")
chart_Series(AAPL, subset = "2017")
add_TA(RSI(Cl(AAPL)))
quantmod:::add_TA(RSI(Cl(AAPL)))
You can see the last value is no longer printed:
(You could make the same kinds of changes in the old addTA code (perhaps via chartSeries if you really want to stick to the old plots)
If you're happy with the changes, and want to make them permament in add_TA, you can recompile the quantmod source code yourself with your modifications (i.e. you need to download the quantmod source code and recompile the package) . If you make a mess of things you can always redownload the original quandmod source code again.
I am plotting a time series with the timePlot function of the open air package of R. The graph has grey grid lines in the background that I would like to turn off but I do not find a way to do it. I would expect something simple such as grid = FALSE, but that is not the case. It appears to be rather complex, requiring the use of extra arguments which are passed to xyplot of the library lattice. I believe the answer lies some where in the par.settings function but all attempts have failed. Does anyone have any suggestions to this issue?
Here is by script:
timeozone <- import(i, date="date", date.format = "%m/%d/%Y", header=TRUE, na.strings="")
ROMO = timePlot(timeozone, pollutant = c("C7", "C9", "C10"), group = TRUE, stack = FALSE,y.relation = "same", date.breaks = 9, lty = c(1,2,3), lwd = c(2, 3, 3), fontsize = 15, cols = c("black", "black"), ylab = "Ozone (ppbv)")
panel = function(x, y) {
panel.grid(h = 0, v = 0)
panel.xyplot(x,y)
}
I have a question about the par function in R.
I want to change the color and/or width of a line in a graph with par function. (I am using par function because the gaps.plot command below does not allow "col" option to be included. The gaps.plot command is used after the synth command).
So, I used the following command. But I noticed that the lines of the BOX are changed rather than the lines of the GRAPHS.
synth1<-read.csv(file="C:\\Users\\Research\\R\\synthinR_v4.csv",header=TRUE)
attach(synth1)
library("Synth")
dataprep.out34 <- dataprep(foo = synth1, predictors = c("lncdsales", "md1", "md2","md3", "md4", "md5", "md6", "md7", "md8", "md9", "md10", "md11", "yd1", "yd2", "yd3", "yd4", "yd5", "yd6", "yd7", "yd8"), predictors.op = "mean", time.predictors.prior = -13:1, dependent = "lndigital", unit.variable = "artistalbumcode", time.variable = "release", treatment.identifier = 34, controls.identifier = c(1:33, 35:49), time.optimize.ssr = -13:1, time.plot = -13:25)
synth.out34 <- synth(data.prep.obj = dataprep.out34, method = "BFGS")
par(lwd = 2, col="#cccccc")
gaps.plot(synth.res = synth.out34, dataprep.res = dataprep.out34, Ylab = " Log Digital Sales ", Xlab = "Release", Ylim = c(-7, 7) , Main = NA)
Does anyone know how to fix this problem??
Thank you in advance for your willingness to help. I greatly appreciate it!
The col argument to par sets the default plotting colour (i.e. when col is not explicitly specified in plotting calls), but unfortunately col = "black" is hard-coded into the source of gaps.plot.
You can make a modified copy of the function by either (1) viewing the source (F2 in RStudio, or just executing gaps.plot), editing it and assigning it to a new object, or (2) doing something like the following:
gaps.plot2 <- eval(parse(text=gsub('col = "black"', 'col = "red"',
deparse(Synth:::gaps.plot))))
and then using gaps.plot2 as you would use gaps.plot:
gaps.plot2(synth.res = synth.out34, dataprep.res = dataprep.out34,
Ylab = " Log Digital Sales ", Xlab = "Release", Ylim = c(-7, 7) ,
Main = NA)
Alter the lwd similarly. For example to make lines red and have width of 3, use nested gsub calls like this:
gaps.plot2 <- eval(parse(text=gsub('lwd = 2', 'lwd = 3',
gsub('col = "black"', 'col = "red"',
deparse(Synth:::gaps.plot)))))