RE: [R] Smooth monotone estimation on R
Browsing over the FDA book, I can not find any discussion of monotone smoothing. Andy From: Kjetil Halvorsen Hola! Experimenting a little, package fda seems very much under development, and help pages are definitely not finished. It would certainly help to read the book functional data analysis by the author of fda, which is in our library. On the other hand package mgcv is more mature, so it would seem easier to use that. It is not totally automatic, but the example library(mgcv) example(mono.con) has everything necessary to get started. Kjetil Halvorsen Eliyahu-Oron wrote: Kjetil and Andy, Thanks for your helpful answers! The first two (mgcv and fda) seem to be in the direction I'm looking for. I downloaded them both. I'm running into a lot of implementation difficulties, though. I wonder if there's anyone who tried to do a monotone spline using either the 'mgcv' or the 'fda' packages, whom I could ask directly? Thanks again, Assaf -Original Message- From: Kjetil Halvorsen [mailto:[EMAIL PROTECTED] Sent: Monday, July 12, 2004 4:32 PM To: Assaf P Oron Cc: [EMAIL PROTECTED] Subject: Re: [R] Smooth monotone estimation on R help.search() on my machine turns up only: mono.con(mgcv) Monotonicity constraints for a cubic regression spline. smooth.monotone(fda)Monotone Smoothing of Data pmreg(ftnonpar) Piecewise monotone regression with taut strings backSpline(splines) Monotone Inverse Spline isoreg(stats) Isotonic / Monotone Regression so you should find something of use in packages mgvc, fda, ftnonpar, splines or stats (.loaded by default) Kjetil Halvorsen Assaf P Oron wrote: Hi all, I'm looking for smooth monotone estimation packages, preferably using splines. I downloaded the 'cobs' package and intend to use it, but since it offers only quadratic splines based on L1 minimization, I'd like to compare its performance to that of a more 'mainstream' cubic-spline, L2-norm minimizing spline. Preferably a smoothing spline. Does anyone know of such code existing anywhere? Or another smooth monotone alternative? Thanks in advance, Assaf Oron Statistics Department University of Washington __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] Smooth monotone estimation on R
Andy, Kjetil, hi,
I figured out how to run this, after visiting Jim Ramsay's FDA webpage
example on monotone smoothing:
http://ego.psych.mcgill.ca/misc/fda/ex-growth-d1.html
The code there is Matlab, using very similar names to the R names.
First one needs to create a 'blank' B-spline object (using
create.bspline.basis(), then data2fd() with a 'blank' data vector of, say,
zeros).
Then this object is used as the 'Wfdobj' argument in 'smooth.monotone()'.
The smoothing spline version (lambda=some positive constant) seems to work
better than non-penalized splines (lambda=0).
So the command would be
solution-smooth.monotone(x,y,Wfdobj=createdbspline,lambda=0.1)
The fit may be shown using
fitted-solution$beta[1]+solution$beta[2]*eval.monfd(xx,solution$Wfdobj).
eval.monfd() is a utility to perform the integration on the exponent of the
'embedded' B-spline object.
Algebraic details do appear in the 'smooth.monotone()' help, and also on the
webpage.
Ramsay's approach seems to be the one most 'popular' in literature at the
moment, so I'll probably use this package a lot over the next few weeks. If
someone can't access Jim Ramsay or some other 'FDA insider', you can
probably forward them to me regarding smooth.monotone().
Thanks so much again,
Assaf
-Original Message-
From: Liaw, Andy [mailto:[EMAIL PROTECTED]
Sent: Wednesday, July 14, 2004 6:17 AM
To: 'Kjetil Halvorsen'; Eliyahu-Oron
Cc: [EMAIL PROTECTED]
Subject: RE: [R] Smooth monotone estimation on R
Browsing over the FDA book, I can not find any discussion of monotone
smoothing.
Andy
From: Kjetil Halvorsen
Hola!
Experimenting a little, package fda seems very much under
development,
and help pages are definitely not finished.
It would certainly help to read the book functional data
analysis by
the author of fda, which is in our library.
On the other hand package mgcv is more mature, so it would
seem easier
to use that.
It is not totally automatic, but the example
library(mgcv)
example(mono.con)
has everything necessary to get started.
Kjetil Halvorsen
Eliyahu-Oron wrote:
Kjetil and Andy,
Thanks for your helpful answers! The first two (mgcv and
fda) seem to be in
the direction I'm looking for. I downloaded them both.
I'm running into a lot of implementation difficulties,
though. I wonder if
there's anyone who tried to do a monotone spline using
either the 'mgcv' or
the 'fda' packages, whom I could ask directly?
Thanks again, Assaf
-Original Message-
From: Kjetil Halvorsen [mailto:[EMAIL PROTECTED]
Sent: Monday, July 12, 2004 4:32 PM
To: Assaf P Oron
Cc: [EMAIL PROTECTED]
Subject: Re: [R] Smooth monotone estimation on R
help.search()
on my machine turns up only:
mono.con(mgcv) Monotonicity constraints for a cubic
regression spline.
smooth.monotone(fda)Monotone Smoothing of Data
pmreg(ftnonpar) Piecewise monotone regression with taut
strings
backSpline(splines) Monotone Inverse Spline
isoreg(stats) Isotonic / Monotone Regression
so you should find something of use in packages mgvc, fda,
ftnonpar, splines
or stats (.loaded by default)
Kjetil Halvorsen
Assaf P Oron wrote:
Hi all,
I'm looking for smooth monotone estimation packages,
preferably using
splines.
I downloaded the 'cobs' package and intend to use it, but
since it offers
only quadratic splines based on L1 minimization, I'd like to
compare its
performance to that of a more 'mainstream' cubic-spline,
L2-norm minimizing
spline. Preferably a smoothing spline.
Does anyone know of such code existing anywhere? Or another
smooth monotone
alternative?
Thanks in advance,
Assaf Oron
Statistics Department
University of Washington
__
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[EMAIL PROTECTED] mailing list
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RE: [R] Smooth monotone estimation on R
Kjetil and Andy, Thanks for your helpful answers! The first two (mgcv and fda) seem to be in the direction I'm looking for. I downloaded them both. I'm running into a lot of implementation difficulties, though. I wonder if there's anyone who tried to do a monotone spline using either the 'mgcv' or the 'fda' packages, whom I could ask directly? Thanks again, Assaf -Original Message- From: Kjetil Halvorsen [mailto:[EMAIL PROTECTED] Sent: Monday, July 12, 2004 4:32 PM To: Assaf P Oron Cc: [EMAIL PROTECTED] Subject: Re: [R] Smooth monotone estimation on R help.search() on my machine turns up only: mono.con(mgcv) Monotonicity constraints for a cubic regression spline. smooth.monotone(fda)Monotone Smoothing of Data pmreg(ftnonpar) Piecewise monotone regression with taut strings backSpline(splines) Monotone Inverse Spline isoreg(stats) Isotonic / Monotone Regression so you should find something of use in packages mgvc, fda, ftnonpar, splines or stats (.loaded by default) Kjetil Halvorsen Assaf P Oron wrote: Hi all, I'm looking for smooth monotone estimation packages, preferably using splines. I downloaded the 'cobs' package and intend to use it, but since it offers only quadratic splines based on L1 minimization, I'd like to compare its performance to that of a more 'mainstream' cubic-spline, L2-norm minimizing spline. Preferably a smoothing spline. Does anyone know of such code existing anywhere? Or another smooth monotone alternative? Thanks in advance, Assaf Oron Statistics Department University of Washington __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Smooth monotone estimation on R
Hola! Experimenting a little, package fda seems very much under development, and help pages are definitely not finished. It would certainly help to read the book functional data analysis by the author of fda, which is in our library. On the other hand package mgcv is more mature, so it would seem easier to use that. It is not totally automatic, but the example library(mgcv) example(mono.con) has everything necessary to get started. Kjetil Halvorsen Eliyahu-Oron wrote: Kjetil and Andy, Thanks for your helpful answers! The first two (mgcv and fda) seem to be in the direction I'm looking for. I downloaded them both. I'm running into a lot of implementation difficulties, though. I wonder if there's anyone who tried to do a monotone spline using either the 'mgcv' or the 'fda' packages, whom I could ask directly? Thanks again, Assaf -Original Message- From: Kjetil Halvorsen [mailto:[EMAIL PROTECTED] Sent: Monday, July 12, 2004 4:32 PM To: Assaf P Oron Cc: [EMAIL PROTECTED] Subject: Re: [R] Smooth monotone estimation on R help.search() on my machine turns up only: mono.con(mgcv) Monotonicity constraints for a cubic regression spline. smooth.monotone(fda)Monotone Smoothing of Data pmreg(ftnonpar) Piecewise monotone regression with taut strings backSpline(splines) Monotone Inverse Spline isoreg(stats) Isotonic / Monotone Regression so you should find something of use in packages mgvc, fda, ftnonpar, splines or stats (.loaded by default) Kjetil Halvorsen Assaf P Oron wrote: Hi all, I'm looking for smooth monotone estimation packages, preferably using splines. I downloaded the 'cobs' package and intend to use it, but since it offers only quadratic splines based on L1 minimization, I'd like to compare its performance to that of a more 'mainstream' cubic-spline, L2-norm minimizing spline. Preferably a smoothing spline. Does anyone know of such code existing anywhere? Or another smooth monotone alternative? Thanks in advance, Assaf Oron Statistics Department University of Washington __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] Smooth monotone estimation on R
I believe the `mgcv' package has facility for monotone splines. HTH, Andy From: Assaf P Oron Hi all, I'm looking for smooth monotone estimation packages, preferably using splines. I downloaded the 'cobs' package and intend to use it, but since it offers only quadratic splines based on L1 minimization, I'd like to compare its performance to that of a more 'mainstream' cubic-spline, L2-norm minimizing spline. Preferably a smoothing spline. Does anyone know of such code existing anywhere? Or another smooth monotone alternative? Thanks in advance, Assaf Oron Statistics Department University of Washington __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Smooth monotone estimation on R
help.search() on my machine turns up only: mono.con(mgcv) Monotonicity constraints for a cubic regression spline. smooth.monotone(fda)Monotone Smoothing of Data pmreg(ftnonpar) Piecewise monotone regression with taut strings backSpline(splines) Monotone Inverse Spline isoreg(stats) Isotonic / Monotone Regression so you should find something of use in packages mgvc, fda, ftnonpar, splines or stats (.loaded by default) Kjetil Halvorsen Assaf P Oron wrote: Hi all, I'm looking for smooth monotone estimation packages, preferably using splines. I downloaded the 'cobs' package and intend to use it, but since it offers only quadratic splines based on L1 minimization, I'd like to compare its performance to that of a more 'mainstream' cubic-spline, L2-norm minimizing spline. Preferably a smoothing spline. Does anyone know of such code existing anywhere? Or another smooth monotone alternative? Thanks in advance, Assaf Oron Statistics Department University of Washington __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
