R Observatory: Metrics for dagHMM version 0.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

dagHMM

0.1.1

Directed Acyclic Graph HMM with TAN Structured Emissions

0packages depend

2Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Prajwal BendeFirst published 2023-01-102 releasesCRAN page ↗

Hidden Markov models (HMMs) are a formal foundation for making probabilistic models of linear sequence. They provide a conceptual toolkit for building complex models just by drawing an intuitive picture. They are at the heart of a diverse range of programs, including genefinding, profile searches, multiple sequence alignment and regulatory site identification. HMMs are the Legos of computational sequence analysis. In graph theory, a tree is an undirected graph in which any two vertices are connected by exactly one path, or equivalently a connected acyclic undirected graph. Tree represents the nodes connected by edges. It is a non-linear data structure. A poly-tree is simply a directed acyclic graph whose underlying undirected graph is a tree. The model proposed in this package is the same as an HMM but where the states are linked via a polytree structure rather than a simple path.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("dagHMM", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-daghmm

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-dagHMM

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-dagHMM

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 58 s · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

6

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 0%

Downloads

2K

CRAN downloads in the past year

Rank #19,253 · ~6/day · ~168/mo

Releases R versions

Daily download trend is not available in this view yet.

16930 days

57390 days

2K1 year

Compare downloads with other packages →

Also on101 r2u2 autocran

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (6)

gtools future matrixStats PRROC bnlearn bnclassify

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Prajwal Bende

Author, Maintainer

Authors (1)

Prajwal Bende

Author, Maintainer

Other (2)

Russ Greiner

Thesis advisor

Pouria Ramazi

Thesis advisor

Package Timeline

2 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.1Latest
2025-07-18 · current release · diff ↗
unarchivedReturned to CRAN
2025-07-18
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
archivedRemoved from CRAN
2023-10-20
requires archived package 'bnclassify'
R
R 4.3.0 released · 2023-04-21
0.1.0
2023-01-10
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2023-01-10
Total releases: 2 / 3 yrs
License: GPL (>= 2.0.0)
Download size: 12 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("dagHMM")

Format

Bende, P., Greiner, R., & Ramazi, P. (2025). dagHMM: Directed Acyclic Graph HMM with TAN Structured Emissions (Version 0.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.dagHMM

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for dagHMM version 0.1.1 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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