Hidden Markov Models with Extra Zeros
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- OKnotes on 2 of 13
- CRAN 30-day downloads, method
- 217−26.9% down on the 30 days before, the worse direction
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Method
Reverse dependencies
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- No testsnothing to run
- Advisories, method
Method
Security advisories
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License field of each package's DESCRIPTION file, read the way R itself reads it. No licence file is opened.tools::analyze_license() and R's own licence database, as CRAN's checks read it.| is read, so one string can offer two families.
Contains functions for hidden Markov models with observations having extra zeros as defined in the following two publications, Wang, T., Zhuang, J., Obara, K. and Tsuruoka, H. (2016) <doi:10.1111/rssc.12194>; Wang, T., Zhuang, J., Buckby, J., Obara, K. and Tsuruoka, H.
Full description
Contains functions for hidden Markov models with observations having extra zeros as defined in the following two publications, Wang, T., Zhuang, J., Obara, K. and Tsuruoka, H. (2016) <doi:10.1111/rssc.12194>; Wang, T., Zhuang, J., Buckby, J., Obara, K. and Tsuruoka, H. (2018) <doi:10.1029/2017JB015360>. The observed response variable is either univariate or bivariate Gaussian conditioning on presence of events, and extra zeros mean that the response variable takes on the value zero if nothing is happening. Hence the response is modelled as a mixture distribution of a Bernoulli variable and a continuous variable. That is, if the Bernoulli variable takes on the value 1, then the response variable is Gaussian, and if the Bernoulli variable takes on the value 0, then the response is zero too. This package includes functions for simulation, parameter estimation, goodness-of-fit, the Viterbi algorithm, and plotting the classified 2-D data. Some of the functions in the package are based on those of the R package 'HiddenMarkov' by David Harte. This updated version has included an example dataset and R code examples to show how to transform the data into the objects needed in the main functions. We have also made changes to increase the speed of some of the functions.
- Maintainer
- Ting Wang
- Licence
- GPL (>= 2)
- Latest release
- 3 Aug 2021
- First release
- 17 Sep 2018
More details
- Releases
- 2
- Needs compilation
- Yes
- Date
- 2021-08-02
- LazyData
- no
Subjects (1) Method, SubjectsMethod
Subjects and collections
Subjects are the site's own grouping of CRAN packages, found by clustering. Collections are sets of packages that communities declare, such as the tidyverse.
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- Subjects are found by clustering the words of current CRAN packages and the packages they use. No one edits them by hand.
- Collections
- Collections are sets that communities declare, through a package that installs the set or an organization on GitHub. The site finds them by rules.
- Who made each
- Subjects are marked Site and collections Community. Subjects, collections and task views are never mixed in one list.
- The day of the data
- Subjects and collections were last worked out on 22 Oct 2026.
Cite
Package
Run in R for the authors' preferred citation:
citation("HMMextra0s")R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
Balamuta, J. J. (2026). R Observatory: Metrics for HMMextra0s version 1.1.0 [Data set]. HJJB, LLC. Data release v2026-10-28. https://doi.org/10.5281/zenodo.21843040
About
From data release v2026-10-28, which the citation names so these numbers can be found later.
Health
No warnings or errors. 2 of 13 check platforms have notes.
r-devel-linux-x86_64-debian-clangThe unreleased R on Linux, x86_64, debian-clang
Note
- Version checked
- 1.1.0
- Time taken
- 44 s
CRAN incoming feasibility: Note
Maintainer: ‘Ting Wang <ting.wang@otago.ac.nz>’
r-devel-linux-x86_64-debian-gccThe unreleased R on Linux, x86_64, debian-gcc
Note
- Version checked
- 1.1.0
- Time taken
- 34 s
CRAN incoming feasibility: Note
Maintainer: ‘Ting Wang <ting.wang@otago.ac.nz>’
r-devel-linux-x86_64-fedora-clangThe unreleased R on Linux, x86_64, fedora-clang
OK
- Version checked
- 1.1.0
- Time taken
- 30 s
r-devel-linux-x86_64-fedora-gccThe unreleased R on Linux, x86_64, fedora-gcc
OK
- Version checked
- 1.1.0
- Time taken
- 28 s
r-devel-windows-x86_64The unreleased R on Windows, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 132 s
r-oldrel-macos-arm64The previous release of R on macOS, arm64
OK
- Version checked
- 1.1.0
r-oldrel-macos-x86_64The previous release of R on macOS, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 34 s
r-oldrel-windows-x86_64The previous release of R on Windows, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 75 s
r-patched-linux-x86_64The patched release of R on Linux, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 36 s
r-release-linux-x86_64The current release of R on Linux, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 37 s
r-release-macos-arm64The current release of R on macOS, arm64
OK
- Version checked
- 1.1.0
- Time taken
- 14 s
r-release-macos-x86_64The current release of R on macOS, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 42 s
r-release-windows-x86_64The current release of R on Windows, x86_64
OK
- Version checked
- 1.1.0
- Time taken
- 81 s
- 2 Note
- 11 OK
Check output (1)
CRAN incoming feasibility, Note on 2 platforms
Maintainer: ‘Ting Wang <ting.wang@otago.ac.nz>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Ting",
family = "Wang",
role = c("aut", "cre"),
email = "ting.wang@otago.ac.nz"),
person(given = "Wolfgang",
family = "Hayek",
role = "aut"),
person(given = "Alexander",
family = "Pletzer",
role = "aut"))
as necessary.Downloads
Method, Downloads Method Download figures count requests logged by each distribution channel. They are not counts of installs or of users, because each channel publishes its own totals and this site reads them.Downloads
- Total downloads in the last 30 days
- 222−31.7% down on the 30 days before, the worse directionIt is the sum of 3 channels: CRAN, r2u and autoCRAN.
CRAN rank
21,101 of 26,530
CRAN
217 downloads in the last 30 days
- Rank
- 21,101 of 26,530
- Change
- −26.9% down on the 30 days before, the worse direction
It is in the total. Take it out
r2u
2 downloads in the last 30 days
- Rank
- 14,902 of 30,526
- Change
- −88.2% down on the 30 days before, the worse direction
It is in the total. Take it out
autoCRAN
3 downloads in the last 30 days
- Rank
- 17,776 of 29,212
- Change
- −72.7% down on the 30 days before, the worse direction
It is in the total. Take it out
The total is 222 downloads in the last 30 days. It is the sum of 3 channels: CRAN, r2u and autoCRAN.
Over time
Dependencies
- Needs
- 3
- Dependent packages
- 0
- Suggested by
- 0
Needs (3)
Optional extras (1)
Code
Method, Code Method Code metrics come from reading the released source of each package version. The package is never installed, loaded or run.Code metrics
README, vignettes, a NEWS file and the shares read from its help pages. Files kept only in the repository, such as a pkgdown configuration or CI files, are read by the repository scan instead.
- Functions
- 18
- Public exports
- 9
- Lines of R code
- 685
- Median complexity
- 8
Functions (18)
Size and composition
Lines by kind (1,871)
| Kind | Lines | Share |
|---|---|---|
| R code | 685 | 37% |
| Documentation | 914 | 49% |
| Compiled code | 272 | 15% |
Lines by language
| Language | Lines | Share |
|---|---|---|
| Rd | 914 | 49% |
| R | 685 | 37% |
| Fortran | 236 | 13% |
| C | 36 | 2% |
Languages are counted from file extensions.
- Files
- 31
- R functions
- 9
- Compiled functions
- 9
Complexity
- Median
- 8
- Mean
- 10.33
- Highest
- 22
- Median lines per function
- 60
About complexity
Cyclomatic complexity counts the independent paths through a function: 1 is a straight line, higher is harder to test. R functions only.
Call graph figures
- R functions
- 9
- Calls
- 0
- Unconnected
- 9
- Groups
- 0
Growth (2 releases)
Release changes
Tests
The package was built and has no tests to run.
- Lines of tests
- 0
- Exports named in tests
- 0%
Test suite
- Has tests
- No
- Test frameworks
- No tests in this release
- Test lines per line of code
- 0
Documentation
- Exports documented
- 100%
- Arguments documented
- 100%
- Return value documented
- 77.8%
- Help pages with examples
- 90.9%
- Examples run in checks
- 100%
Other documentation
- README
- No
- Release notes file
- No
- Help pages
- 11
- Lines of documentation
- 914
Datasets
Method, Datasets Method The datasets inside packages are read from their R objects in datasets
data/ folders when the code is analysed. Each object is described by its class, its shape and its columns, and fingerprinted so the same data can be found in other packages.data() are listed, 76,161 on CRAN and 8,045 on Bioconductor, so the list is not every file in data/.
| Dataset | Size | Columns |
|---|---|---|
| KiiTremor data in the Kii region in 2002 and 2003 for use in function hmm0norm2d | 1,112 × 6 | year, month, day, hour, lat, lon |
People
Method, People Method People on the site are the names packages give them in their Author and maintainer identity
DESCRIPTION files: authors from the author list, and the maintainer from the Maintainer field. Spellings of one name become one person only where the rules below allow it, and when in doubt the rules keep people apart.
Maintainer since 1.0.0 (2018)
Earlier names (2)
- contributions
- Ting Wang - I am grateful to Jiancang Zhuang for some helpful suggestions
Repository
Method, figures by host Method Repository signals are the figures read from the source repository a package links to: stars, forks, issues, commits, releases and the time issues take to close. They are read from GitHub, GitLab, Codeberg and Bitbucket.Repository signals
URL and BugReports fields of its DESCRIPTION file. Read-only mirrors, the cran and bioc accounts on GitHub and git.bioconductor.org, are left out.
No repository on record
History
Method, History Method Archived is built from CRAN's archive records, its list of check deadlines and Bioconductor's package records. Every figure is counted to 28 Oct 2026, the day the data was read.Packages leaving
- On CRAN
- Release