Re: [R] Peak detector help!?
Hello, There is also that previous discussion: http://r.789695.n4.nabble.com/peak-detection-td3086410.html Pascal Le 07/02/2013 03:22, Johannes Graumann a écrit : Grrr ... new trial with code here: http://pastebin.com/RjHNNG9J Maybe the amount of inline-code prevented posting? Hello, I am writing a simple peak detector and it works quite well ... however there's one special case below, that I can't get my head wrapped around ... the problem is in the "Deal with not fully qualified peaks at the sequence extremes" section, but I cannot seem to come up with a condition that would be met in the special case below and base a fix on it ... mind completely poisoned with trial solutions that didn't work ... A fresh hint anyone? Sincerely, Joh __ 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. __ 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.
Re: [R] Peak detector help!?
Hi
I am not sure if it suits your needs but I use this function for identifying
peaks in different spectral data.
peaks <- function (series, span = 3, ties.method = "first")
{
if ((span <- as.integer(span))%%2 != 1)
stop("'span' must be odd")
z <- embed(series, span)
s <- span%/%2
v <- max.col(z, ties.method = ties.method) == 1 + s
pad <- rep(FALSE, s)
result <- c(pad, v, pad)
result
}
Works for both your examples.
Regards
Petr
test <- c(9,8,7,5,4,1,1,2,1,1,3,4,5,6,7,5,4,3,2,1,1,3,4,5,6,7,8)
plot(seq(length(test)),test)
peaks(test)
[1] FALSE FALSE FALSE FALSE FALSE FALSE FALSE TRUE FALSE FALSE FALSE FALSE
[13] FALSE FALSE TRUE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
[25] FALSE FALSE FALSE
pp<-peaks(test)
abline(v=seq(length(test))[pp], col=2)
test <- c(rep(1,10),20,rep(1,10))
plot(seq(length(test)),test)
pp<-peaks(test)
abline(v=seq(length(test))[pp], col=2)
> -Original Message-
> From: r-help-boun...@r-project.org [mailto:r-help-bounces@r-
> project.org] On Behalf Of Johannes Graumann
> Sent: Thursday, February 07, 2013 1:42 PM
> To: r-h...@stat.math.ethz.ch
> Subject: Re: [R] Peak detector help!?
>
> Johannes Graumann wrote:
>
> > Grrr ... new trial with code here: http://pastebin.com/RjHNNG9J Maybe
> > the amount of inline-code prevented posting?
> >
> > Hello,
> >
> > I am writing a simple peak detector and it works quite well ...
> > however there's one special case below, that I can't get my head
> > wrapped around ... the problem is in the "Deal with not fully
> > qualified peaks at the sequence extremes" section, but I cannot seem
> > to come up with a condition that would be met in the special case
> > below and base a fix on it ... mind completely poisoned with trial
> solutions that didn't work ...
> >
> > A fresh hint anyone?
> >
> > Sincerely, Joh
>
> Sleep brought some insight.
>
> The code here http://pastebin.com/UXzbzqp8 works for now - I have
> already quite a number of test cases that gave me problems and now
> don't ...
> probably more corner cases somewhere, but they will be dealt with as
> they show up.
>
> Cheers, Joh
>
> __
> 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.
__
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.
Re: [R] Peak detector help!?
Johannes Graumann wrote: > Grrr ... new trial with code here: http://pastebin.com/RjHNNG9J > Maybe the amount of inline-code prevented posting? > > Hello, > > I am writing a simple peak detector and it works quite well ... however > there's one special case below, that I can't get my head wrapped around > ... the problem is in the "Deal with not fully qualified peaks at the > sequence extremes" section, but I cannot seem to come up with a condition > that would be met in the special case below and base a fix on it ... mind > completely poisoned with trial solutions that didn't work ... > > A fresh hint anyone? > > Sincerely, Joh Sleep brought some insight. The code here http://pastebin.com/UXzbzqp8 works for now - I have already quite a number of test cases that gave me problems and now don't ... probably more corner cases somewhere, but they will be dealt with as they show up. Cheers, Joh __ 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.
[R] Peak detector help!?
Grrr ... new trial with code here: http://pastebin.com/RjHNNG9J Maybe the amount of inline-code prevented posting? Hello, I am writing a simple peak detector and it works quite well ... however there's one special case below, that I can't get my head wrapped around ... the problem is in the "Deal with not fully qualified peaks at the sequence extremes" section, but I cannot seem to come up with a condition that would be met in the special case below and base a fix on it ... mind completely poisoned with trial solutions that didn't work ... A fresh hint anyone? Sincerely, Joh __ 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.
