Displaying 20 results from an estimated 3000 matches similar to: "How to predict significant dominant regions of two sequence of numeric values by Hidden Markov Model"
2008 Feb 12
1
Markov and Hidden Markov models
Hi,
Is there a package that will estimate simple Markov models and hidden
Markov models for discrete time processes in R?
Thanks in advance,
David
--
===============================================================
David Kaplan, Ph.D.
Professor
Department of Educational Psychology
University of Wisconsin - Madison
Educational Sciences, Room, 1061
1025 W. Johnson Street
Madison, WI 53706
2005 Sep 26
1
hidden markov models
Dear R community,
I am looking for an R package or other software to study hidden
Markov models. I need to be able to incorporate multivariate
emissions and covariates for the transition probabilities. The msm
package seems almost perfect for my purpose, but I do not think it
allows multivariate emissions.
I will be grateful for your suggestions.
All the best,
--
Emilio A. Laca
One
2008 Apr 28
0
Hidden Markov model in R: books or tutorial biomed/ecology slant
Hi,
I was just wondering if there are any books on R that have applications
using Hidden Markov models
or anyone with tutorials/exercises that can be shared.
Ideally, these would have a bio/ecological slant though not neccesarily.
Any suggestions would be appreciated.
Thanks!
[[alternative HTML version deleted]]
2011 Jan 26
0
hmm.discnp hidden markov model
Hi all,
I am using a discrete Hidden Markov Model with discrete observations in
order to detect a sequence of integers. I am using the "hmm.discnp" package.
I am using the following code:
signature <- c(-89, -98, -90, -84, -77, -75, -64, -60, -58, -55, -56, -57,
-57, -63, -77, -81, -82, -91, -85, -89, -93)
quant <- length(-110:-6)
# Initialize and train the hmm with the
2017 Aug 31
0
The aphid package for analysis with profile hidden Markov models
Hi folks,
I'm pleased to introduce a new package called ?aphid?, for analysis with
profile hidden Markov models in R.
The package contains functions for multiple and pairwise sequence alignment
for both nucleic acids and proteins (preferably in the DNAbin or AAbin
format), model building, parameter optimization (Baum Welch and Viterbi
training), plotting, file import & export,
2017 Aug 31
0
The aphid package for analysis with profile hidden Markov models
Hi folks,
I'm pleased to introduce a new package called ?aphid?, for analysis with
profile hidden Markov models in R.
The package contains functions for multiple and pairwise sequence alignment
for both nucleic acids and proteins (preferably in the DNAbin or AAbin
format), model building, parameter optimization (Baum Welch and Viterbi
training), plotting, file import & export,
2004 Jun 20
1
hidden markov models in R?
Hi, friends!
Has R estimation (library, for example) to do estimation in HMM?
Thanks in advance,
========================================
Cezar Freitas
Estatistico - Comissao Permanente para os Vestibulares / UNICAMP
Probabilidade e Estatistica Aplicadas - IME / USP | IMECC / UNICAMP
Campinas | Sao Paulo, SP - Brasil
2011 Jul 27
1
Hidden Markov Models in R
R Community -
I am attempting to fit a model as described in Hampton, Bossaerts, and
O'doherty (J. Neuroscience) 2006. They use a bayesian hidden markov model
to model the Reversal Learning data. I have tried using HMM and depmixS4
with no success. My data is a Reversal Learning Task in which there are 3
sets of patterns over 3 blocks. The participant receives incorrect or
correct
2012 Jan 19
0
state multi-state modeling using hidden markov routine in the msm package
Hello Chris,
I am trying to fit a 4 state multi-state model using hidden markov routine in the msm package.
1. initial parameters:
twoway4.q <- rbind(c(0, 0.25, 0, 0.25), c(0.166,
0, 0.166, 0.166), c(0, 0.25, 0, 0.25), c(0,
0, 0, 0))
ematrix <- rbind(
c(0, 0.01, 0, 0),
c(0.01, 0, 0.01,0),
c(0, 0.1, 0, 0),
c(0, 0, 0, 0))
2. the model:
msm_covariates_sexandage <- msm(state ~
2008 Nov 11
1
R: R: Hidden Markov Models
Thank you for your prompt answer.
The breathing signal observations are the amplitude values as a function of time and phase.
According to our model the hidden states are the different breathing types.
Subjects, whose respiratiion process is regular, are likely to breathe, keeping the same cycle pattern/type,
for many consecutive cycles. therefore dwelling in the same hidden state.
The more
2012 Mar 02
2
回复: Bayesian Hidden Markov Models
Dear Oscar,
Thanks for your help.It's so nice of you to explain this package to me.
Best Regards,
James LAN
发件人: Oscar Rueda [via R] <ml-node+s789695n4431468h14@n4.nabble.com>
收件人: monkeylan <lanjinchi@yahoo.com.cn>
发送日期: 2012年2月29日, 星期三, 下午 9:21
主题: Re: Bayesian Hidden Markov Models
Dear James,
The distances are normalized between zero and 1, so in your case all of
2011 May 28
1
ggplot pale colors
Hello i am new to ggplot and i observed a strange behavior.
I want to display two groups of points, each group with a different color.
But i encountered a problem with the colors.
Here is a first example:
dataset <- data.frame(Main = c("A", "A", "B", "B"), Detail = c( "b", "c", "1", "2"), resp = runif(4, min
2011 Feb 02
0
Finding the dominant factor in an unbalanced group
Hi all.
This is perhaps more a statistics question but I'm hoping someone can
help me.
I have a group of patients for whom I'm looking at beat to beat RR
interval changes.
I have plotted the difference between one beat length and the next
against the difference between the previous beat length and the current one.
This gives me a plot with four quadrants: the bottom left corresponding
to
2012 Jul 27
1
fitting Markov Switching Model
Dear Users,
i have this time series, the tree lines means different level, i would use
a Markov switching model with two states to modelling this time series. i
would obtain the relative transition matrix (2X2)
the first state is above the value of 23.65 (the higher line)
the second state is below the value of 23.65
You can ignore the other two lines
2007 Oct 30
2
markov regime switching models
Hi,
I am looking for a package to estimate regime switching models (states
following a markov chain).
I found packages for Hidden Markov Models but I am looking for something a
little different: In the HMM the conditional distribution of the
observations (give the state) is a known distribution (normal or others),
while the package I need should allow to set a conditional distribution
(given the
2003 Jun 25
2
Markov chain simulation
Hi,
Does anybody know a function to simulate a Markov chain given a
probability transition matrix and an initial state ?
Thanks.
Philippe
--
--------------------------------------------------
Philippe Hup?
Institut Curie - Equipe Bioinformatique
26, rue d'Ulm - 75005 PARIS France
+33 (0)1 42 34 65 29
Philippe.Hupe at curie.fr <mailto:Philippe.Hupe at curie.fr>
2009 Mar 03
1
spatial markov chain methods
Hello,
can any one point me to R-packages (if available) which include spatial
Markov Chain methods?
My second question is more general but hopefully not OT: Currently we
are using the software TPROGS, which let people simulate property
distributions in space by some Markov Chain approaches. We face some
problems due to the lack of information between distances of samples
along borehole path
2006 Jan 13
1
multivariate markov switching
Dear helpers,
Does anyone know about a package or a function that allows to estimate
Multivariate Markov-Switching Models, like MS-VAR as introduced by
Krolzig(1997) with R ?
Thanks a lot!!
Carlo
2009 May 09
1
R package for estimating markov transition matrix from observations + confidence?
Dear R gurus,
I have data for which I want to estimate the markov transition matrix
that generated the sequence, and preferably obtain some measure of
confidence for that estimation.
e.g., for a series such as
1 3 4 1 2 3 1 2 1 3 4 3 2 4 2 1 4 1 2 4 1 2 4 1 2 1 2 1 3 1
I would want to get an estimate of the matrix that generated it
[[originally:
[,1] [,2] [,3] [,4]
[1,] 0.00 0.33 0.33
2009 Nov 15
1
how to permute, simulate Markov chain
Hi all,
I am new to R. Can someone please give me some hints in how to do the
following things:
1- Get ONE permutation of a set. I have looked at the gregmisc package's
permutations() method, but I just want to get one permutation at a time.
2- Simulate a Markov chain in R. For instance, I want to simulate the simple
random walk problem, in which a person can walk randomly around 4 places.