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Improved evolution of correlations

January 21, 2013

Update June 2013: A systematic analysis of the topic has been published:
Schönbrodt, F. D., & Perugini, M. (2013). At what sample size do correlations stabilize? Journal of Research in Personality, 47, 609-612. doi:10.1016/j.jrp.2013.05.009

Check also the supplementary website, where you can find the PDF of the paper.

As an update of this post: here’s an improved version of “The evolution of correlations”.

From the original post:
“This is the evolution of a bivariate correlation between two questionnaire scales, “hope of power” and “fear of losing control”. Both scales were administered in an open online study. The video shows how the correlation evolves from r = .69*** (n=20) to r = .26*** (n=271). It does not stabilize until n = 150.

Data has not been rearranged – it is the random order how participants dropped into the study. This had been a rather extreme case of an unstable correlation – other scales in this study were stable right from the beginning. Maybe this video could help as an anecdotal caveat for a careful interpretation of correlations with small n’s (and with ‘small’ I mean n < 100) …”

The right panel now displays the correlation in each step. The horizontal green line is the final correlation that is approached, the curved dotted line shows the marginal correlation that would be significant at that sample size. As the empirical curve always is above this dotted line, it is significantly different from zero in each step.

Evolution of correlations – improved from Felix Schönbrodt on Vimeo.

 

Here the code that created the movie. It’s not fully self-contained – the function plotReg plots the dual-panel display, dat0, A, and B are parameters passed to this function. You can insert any other function here. The function loops through the rows of a data frame and saves a plot at every step into a subfolder. Finally, the function needs the command line version of ffmpeg, which connects the pictures to a movie.

makeMovie <- function(fname, dat0, A, B, fps=15) {
   
    # create a new directory for the pictures
    dir.create(fname)
   
    # create the picture sequence
    picName <- paste(fname, "/", fname, "_%03d.jpg", sep="")
    jpeg(picName, width=800, height=450, quality=95)
    for (i in 15:nrow(dat0)) {
      print(i)
      plotReg(A, B, i, keep=15)
    }
    dev.off()
   
    # delete any existing movie file
    unlink(paste(fname,".mpg",sep=""))
   
    # point system to R's working directory
    system(paste("cd ", gsub(" ", "\\ ", getwd(), fixed=TRUE)))
   
    # show & execute the command line expression for ffmpeg to glue the pictures together
    print(paste(paste0("ffmpeg -r ", fps, " -i ", fname, "/", fname, "_%03d.jpg -sameq -r 25 ",  paste0(fname,".avi"))))
    system(paste(paste0("ffmpeg -r ", fps, " -i ", fname, "/", fname, "_%03d.jpg -sameq -r 25 ",  paste0(fname,".avi"))))
}

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Optimizing parameters for an oscillator – Video

January 10, 2013

Here’s a video how the modFit function from the FME package optimizes parameters for an oscillation. A Nelder-Mead-optimizer (R function optim) finds the best fitting parameters for an undampened oscillator. Minimum was found after 72 iterations, true parameter eta was -.05:

Evolution of parameters in optimization process from Felix Schönbrodt on Vimeo.

More on estimating parameters of differential equations is coming later on this blog!

Things I’ve learned:

  • ffmpeg does not like pngs. They are internally converted to jpg in a very low quality and I could not find a way to improve this quality. Lesson learned: Export high quality jpgs from your R function
  • Use a standard frame rate for the output file (i.e., 24, 25, or 30 fps)
  • My final ffmpeg command:
    ffmpeg -r 10 -i modFit%03d.jpg -r 25 -b:v 5000K modelFit.avi
    • -r 10: Use 10 pictures / second as input
    • -i modFit%03d.jpg: defines the names of the input files, modFit001.jpg, modFit002.jpg, …
    • -r 25: Set framerate of output file to 25 fps
    • -b:v 5000K: set bitrate of video to a high value
    • modelFit.mp4: video name and encoding type (mp4)

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