R Observatory: Metrics for dagHMM version 0.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

dagHMM

0.1.1Package record

Directed Acyclic Graph HMM with TAN Structured Emissions

0packages depend

2.2Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Prajwal BendeCRAN 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. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 56 s · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 10
Examples that run: 100%9 run in a plain check
Exported functions with examples: 90%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 0%

How these are measured

Downloads

2.2K

CRAN downloads in the past year

Rank #19,961 · ~6/day · ~182/mo

Releases R versions

Daily download trend is not available in this view yet.

24830 days

65890 days

2.2K1 year

Compare downloads with other packages →

Also on76 r2u4 autocran

How downloads are counted

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing dagHMM adds 15 packages (8 with compiled code, 20 MB of source tarballs). Heaviest: BH 14 MB, Rcpp 1.8 MB, bnlearn 1.3 MB.

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.

How these are counted

Code & Tests

People & History

People (3)

Prajwal Bende

Author, Maintainer since 0.1.0 (2023)

Russ Greiner

Thesis advisor

Pouria Ramazi

Thesis advisor

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
unarchivedReturned to CRAN
2025-07-18
0.1.1Latest
record
2025-07-18 · current release · diff ↗
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
record
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

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 package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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