Dear Alison, Creating a dataset in long format instead of wide format makes things much easier with ggplot2. You also need a variable with Year. Rownames will not do.
rwl <- matrix(rnorm(800, 1, sd =0.5), nrow = 100) colnames(rwl) <- paste('V', 1:8, sep = '') rwl <- as.data.frame(rwl) rwl$Year <- 1900:1999 library(ggplot2) molten <- melt(rwl, id.vars = "Year") ggplot(molten, aes(x = Year, y = value)) + geom_smooth() moltenCI <- cast(Year ~ ., data = molten, fun = c(mean, sd, length)) moltenCI$Low <- with(moltenCI, mean - sd / sqrt(length - 1)) moltenCI$High <- with(moltenCI, mean + sd / sqrt(length - 1)) ggplot(moltenCI, aes(x = Year, y = mean, ymin = Low, ymax = High)) + geom_ribbon(alpha = 0.5) + geom_line() ggplot(molten, aes(x = Year, y = value, colour = variable)) + geom_line() ggplot(molten, aes(x = Year, y = value, colour = variable)) + geom_smooth() HTH, Thierry ------------------------------------------------------------------------ ---- ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek team Biometrie & Kwaliteitszorg Gaverstraat 4 9500 Geraardsbergen Belgium Research Institute for Nature and Forest team Biometrics & Quality Assurance Gaverstraat 4 9500 Geraardsbergen Belgium tel. + 32 54/436 185 thierry.onkel...@inbo.be www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John Tukey > -----Oorspronkelijk bericht----- > Van: r-help-boun...@r-project.org > [mailto:r-help-boun...@r-project.org] Namens Alison Macalady > Verzonden: donderdag 16 september 2010 8:51 > Aan: r-help@r-project.org > Onderwerp: [R] plotting time series using ggplots > > Hi, > I would like to plot a bunch of tree ring width data (time > series) using ggplots, but I'm having trouble figuring out > how to do it. > > My data is in a data.frame, with years as rownames and a > distinct tree ring series in each column. So, something like this: > > rwl<-matrix(rnorm(800), nrow = 100) > colnames(rwl) <- paste('V', 1:8, sep = '') > rownames(rwl)<-c(1900:1999) > rwl<-as.data.frame(rwl)) > > I have 2 specific things I'd like to do: > 1) use stat_summary(), geom_line(), and either geom_smooth() or > geom_ribbon() to plot the mean of the timeseries (e.g. > V1:V8) and error bands or confidence limits around the mean > for each year. I cannot figure out how to do this except for > this really clunky way: > > rwl$year<-as.numeric(rownames(rwl)) > h<-ggplot(rwl, aes(x=year)) > h+ geom_line(aes(y=V1)) #plots one of the timeseries > ymax=as.data.frame( t(apply(rwl[1:8], 1, summary,na.rm=TRUE > )) )[,4] ymin=as.data.frame( t(apply(rwl[1:8], 1, > summary,na.rm=TRUE )) )[,2] h + geom_ribbon(aes(ymin=ymin, > ymax=ymax)) > +geom_line(aes(y=rowMeans(rwl[1:8]))) > > 2) I'd like to be able to plot all of the timeseries > together, or plot them grouped by another variable (for > example site), but I can't figure out how to get ggplot to > plot all of the columns as Y data, without specifying each > separate timeseries with a distinct > +geom_line(aes(y="columnname"). > > Any suggestions on either problem would be greatly appreciated! > > ~Ali > -------------------- > Alison Macalady > Ph.D. Candidate > University of Arizona > School of Geography and Development > & Laboratory of Tree Ring Research > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > Druk dit bericht a.u.b. niet onnodig af. Please do not print this message unnecessarily. Dit bericht en eventuele bijlagen geven enkel de visie van de schrijver weer en binden het INBO onder geen enkel beding, zolang dit bericht niet bevestigd is door een geldig ondertekend document. The views expressed in this message and any annex are purely those of the writer and may not be regarded as stating an official position of INBO, as long as the message is not confirmed by a duly signed document. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.