Data

Tools

Indexes

Applications

Experiments

Open Source Science

pomp

R package for statistical inference using partially observed Markov processes

https://github.com/kingaa/pomp

Science Score: 59.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 2 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ✓
    Committers with academic emails
    7 of 13 committers (53.8%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (15.5%) to scientific vocabulary

Keywords

abc b-spline differential-equations dynamical-systems iterated-filtering likelihood likelihood-free markov-chain-monte-carlo markov-model mathematical-modelling measurement-error particle-filter r sequential-monte-carlo simulation-based-inference sobol-sequence state-space statistical-inference stochastic-processes time-series
Last synced: 6 months ago · JSON representation

Repository

R package for statistical inference using partially observed Markov processes

Basic Info
Statistics
  • Stars: 117
  • Watchers: 12
  • Forks: 27
  • Open Issues: 0
  • Releases: 153
Topics
abc b-spline differential-equations dynamical-systems iterated-filtering likelihood likelihood-free markov-chain-monte-carlo markov-model mathematical-modelling measurement-error particle-filter r sequential-monte-carlo simulation-based-inference sobol-sequence state-space statistical-inference stochastic-processes time-series
Created over 10 years ago · Last pushed 7 months ago
Metadata Files
Readme License

README.md

pomp

an R package for statistical inference on partially observed Markov processes

Project Status: Active – The project has reached a stable, usable state and is being actively developed. Development Release CRAN Status Last CRAN release date R-CMD-check binary-build test-coverage codecov CRAN mirror monthly downloads CRAN mirror total downloads Dependencies manual pdf-manual doxygen DOI

For installation instructions and user guides, see the package website.

Related packages:

Owner

  • Name: Aaron A King
  • Login: kingaa
  • Kind: user
  • Location: Ann Arbor
  • Company: University of Michigan

Nelson G. Hairston Collegiate Professor of Ecology & Evolutionary Biology, Complex Systems, and Mathematics

GitHub Events

Total
  • Create event: 10
  • Release event: 10
  • Issues event: 8
  • Watch event: 7
  • Delete event: 5
  • Issue comment event: 13
  • Push event: 55
  • Pull request event: 2
Last Year
  • Create event: 10
  • Release event: 10
  • Issues event: 8
  • Watch event: 7
  • Delete event: 5
  • Issue comment event: 13
  • Push event: 55
  • Pull request event: 2

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 2,988
  • Total Committers: 13
  • Avg Commits per committer: 229.846
  • Development Distribution Score (DDS): 0.043
Past Year
  • Commits: 165
  • Committers: 1
  • Avg Commits per committer: 165.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Aaron A. King k****a@u****u 2,859
Eamon O'Dea o****5@g****m 49
Dao Xuan Nguyen n****d@u****u 41
Martin Pacala m****a@n****t 11
Aaron A King k****a 10
Kidus Asfaw k****0@g****m 7
Edward Ionides i****s@u****u 3
cbreto c****o@u****u 3
Stefan Theussl s****l@g****m 1
Jesse Wheeler j****l@u****u 1
Aaron A. King k****a@e****u 1
sbfnk s****k 1
Timo Voipio t****o@s****i 1
Committer Domains (Top 20 + Academic)
umich.edu: 5 solita.fi: 1 eeb-tilia.eeb.lsa.umich.edu: 1 nospam.wu.ac.at: 1

Issues and Pull Requests

Last synced: over 1 year ago

All Time
  • Total issues: 103
  • Total pull requests: 4
  • Average time to close issues: about 1 month
  • Average time to close pull requests: 21 days
  • Total issue authors: 68
  • Total pull request authors: 4
  • Average comments per issue: 4.66
  • Average comments per pull request: 1.25
  • Merged pull requests: 2
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 3
  • Pull requests: 1
  • Average time to close issues: 3 months
  • Average time to close pull requests: 3 days
  • Issue authors: 3
  • Pull request authors: 1
  • Average comments per issue: 6.67
  • Average comments per pull request: 3.0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • MarieAugerMethe (6)
  • ardhendujy (4)
  • tomessilva (3)
  • kingaa (3)
  • a-ceccarelli (3)
  • mikeaalv (3)
  • mehrdadfazli (3)
  • stevenhuyi (3)
  • e3bo (2)
  • gokhale616 (2)
  • LBJlove1 (2)
  • bogaotory (2)
  • fomotis (2)
  • theresasophia (2)
  • munozav (2)
Pull Request Authors
  • jeswheel (3)
  • cbreto (3)
  • AndreyAkinshin (2)
  • kingaa (1)
  • mkbwang (1)
Top Labels
Issue Labels
help wanted (41) question (29) bug (5) invalid (4) todo (4) enhancement (4) duplicate (2)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 2,001 last-month
  • Total docker downloads: 23,189
  • Total dependent packages: 7
  • Total dependent repositories: 14
  • Total versions: 121
  • Total maintainers: 1
cran.r-project.org: pomp

Statistical Inference for Partially Observed Markov Processes

  • Versions: 121
  • Dependent Packages: 7
  • Dependent Repositories: 14
  • Downloads: 2,001 Last month
  • Docker Downloads: 23,189
Rankings
Docker downloads count: 0.6%
Forks count: 2.9%
Stargazers count: 3.8%
Average: 5.3%
Dependent packages count: 6.6%
Dependent repos count: 7.7%
Downloads: 10.4%
Maintainers (1)
kingaa@umich.edu
Last synced: 7 months ago

Dependencies

DESCRIPTION cran
  • R >= 4.0.0 depends
  • methods * depends
  • coda * imports
  • deSolve * imports
  • digest * imports
  • graphics * imports
  • magrittr * imports
  • mvtnorm * imports
  • plyr * imports
  • reshape2 * imports
  • stats * imports
  • dplyr * suggests
  • ggplot2 * suggests
  • knitr * suggests
  • nloptr * suggests
  • subplex * suggests
  • tidyr * suggests
.github/workflows/binary-build.yml actions
  • actions/checkout v3.1.0 composite
  • actions/upload-artifact v3.1.1 composite
  • r-lib/actions/setup-r v2.3.1 composite
  • r-lib/actions/setup-r-dependencies v2.3.1 composite
.github/workflows/create-release.yml actions
  • actions/checkout v3.1.0 composite
  • actions/create-release v1 composite
  • actions/upload-release-asset v1 composite
  • r-lib/actions/setup-r v2.3.1 composite
  • r-lib/actions/setup-r-dependencies v2.3.1 composite
.github/workflows/r-cmd-check.yml actions
  • actions/checkout v3.1.0 composite
  • actions/upload-artifact v3.1.1 composite
  • r-lib/actions/check-r-package v2 composite
  • r-lib/actions/setup-r v2.3.1 composite
  • r-lib/actions/setup-r-dependencies v2.3.1 composite
.github/workflows/test-coverage.yml actions
  • actions/checkout v3.1.0 composite
  • r-lib/actions/setup-r v2.3.1 composite
  • r-lib/actions/setup-r-dependencies v2.3.1 composite