Package: plotHMM 2025.7.23

plotHMM: Plot Hidden Markov Models

Hidden Markov Models are useful for modeling sequential data. This package provides several functions implemented in C++ for explaining the algorithms used for Hidden Markov Models (forward, backward, decoding, learning).

Authors:Toby Hocking [aut, cre]

plotHMM_2025.7.23.tar.gz
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plotHMM_2025.7.23.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
plotHMM/json (API)

# Install 'plotHMM' in R:

install.packages('plotHMM', repos = c('https://tdhock.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tdhock/plothmm/issues

Uses libs:

c++– GNU Standard C++ Library v3

Datasets:

buggy.5states - Buggy data with 5 states
buggy.data - Buggy data with one state

On CRAN:

cpp

3.30 score 4 scripts 296 downloads 9 exports 2 dependencies

Last updated from:be92fc1a96. Checks:13 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	147
linux-devel-x86_64	OK	157
source / vignettes	OK	226
linux-release-arm64	OK	174
linux-release-x86_64	OK	147
macos-release-arm64	OK	139
macos-release-x86_64	OK	217
macos-oldrel-arm64	OK	111
macos-oldrel-x86_64	OK	242
windows-devel	OK	147
windows-release	OK	136
windows-oldrel	OK	140
wasm-release	OK	174

Exports:backward_interface elnproduct elnsum forward_interface logsumexp multiply_interface pairwise_interface transition_interface viterbi_interface

Dependencies:Rcpp RcppArmadillo

Comparison with depmixS4

Rendered fromcompare_depmixS4.Rmdusingknitr::knitr

Last update: 2023-08-29
Started: 2021-10-18

Multiple sequences

Simple data set where depmix errors for nstates=2

Rendered frommultiple_sequences.Rmdusingknitr::knitr

Last update: 2021-10-27
Started: 2021-10-27

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Backward algorithm	backward_interface
Buggy data with 5 states	buggy.5states
Buggy data with one state	buggy.data
Log probability arithmetic	elnproduct elnsum logsumexp
Forward algorithm	forward_interface
Multiply algorithm	multiply_interface
Pairwise algorithm	pairwise_interface
Transition algorithm	transition_interface
Viterbi algorithm	viterbi_interface