greta

greta: simple and scalable statistical modelling in R - Published in JOSS (2019)

https://github.com/greta-dev/greta

Science Score: 95.0%

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

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CITATION.cff file
✓
codemeta.json file
Found codemeta.json file
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.zenodo.json file
Found .zenodo.json file
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DOI references
Found 3 DOI reference(s) in README and JOSS metadata
✓
Academic publication links
Links to: joss.theoj.org, zenodo.org
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Committers with academic emails
5 of 20 committers (25.0%) from academic institutions
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Institutional organization owner
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JOSS paper metadata
Published in Journal of Open Source Software

Keywords from Contributors

ropensci

Scientific Fields

Artificial Intelligence and Machine Learning Computer Science - 62% confidence

Last synced: 4 months ago · JSON representation

Repository

simple and scalable statistical modelling in R

Basic Info

Host: GitHub
Owner: greta-dev
License: other
Language: C++
Default Branch: main
Homepage: https://greta-stats.org
Size: 42.6 MB

Statistics

Stars: 578
Watchers: 24
Forks: 67
Open Issues: 185
Releases: 11

Created about 9 years ago · Last pushed 8 months ago

Metadata Files

Readme Changelog Contributing License Code of conduct Codemeta

greta is an R package for writing statistical models and fitting them by MCMC and optimisation

greta lets you write your own model like in BUGS, JAGS and Stan, except that you write models right in R, it scales well to massive datasets, and it’s easy to extend and build on.

See the website for more information, including tutorials, examples, package documentation, and the greta forum.

You can install the current release version of the package from CRAN:

r install.packages("greta")

Or install the development version of greta from r-universe:

r install.packages("greta", repos = c("https://greta-dev.r-universe.dev", "https://cloud.r-project.org"))

(Note - installing from r-universe is just like installing from CRAN, and should be faster and more convenient than installing from GitHub)

You can also install the development version of greta via GitHub:

r devtools::install_github("greta-dev/greta")

Installing Python Dependencies

The install_greta_deps() function helps install the Python dependencies (Google's TensorFlow and tensorflow-probability).

By default, install_greta_deps() installs versions TF 2.15.0, and TFP version 0.23.0, using python 3.10. To change the versions of TF, TFP, or python that you want to use, you specify the deps argument of install_greta_deps(), which used greta_deps_spec(). See ?install_greta_deps() or ?greta_deps_spec() for more information.

This helper function, install_greta_deps(), installs the exact pythons package versions needed. It also places these inside a conda environment, "greta-env-tf2". This isolates these exact python modules from other python installations, so that only greta will see them. This helps avoids installation issues, where previously you might update tensorflow on your computer and overwrite the current version needed by greta. Using this "greta-env-tf2" conda environment means installing other python packages should not be impact the Python packages needed by greta.

If these python modules aren't yet installed, when greta is used, it provides instructions on how to install them for your system. If in doubt follow those.

Owner

Name: greta-dev
Login: greta-dev
Kind: organization

Website: https://greta-stats.org/
Twitter: greta_stats
Repositories: 12
Profile: https://github.com/greta-dev

development of greta and extension packages

JOSS Publication

greta: simple and scalable statistical modelling in R

Published

August 12, 2019

DOI

10.21105/joss.01601

Volume 4, Issue 40, Page 1601

Authors

Nick Golding

School of BioSciences, University of Melbourne

Editor

Yuan Tang

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        "name": "Comprehensive R Archive Network (CRAN)",
        "url": "https://cran.r-project.org"
      },
      "sameAs": "https://CRAN.R-project.org/package=yesno"
    },
    "SystemRequirements": "Python (>= 3.7.0) with header files and shared\n    library; TensorFlow (>= v2.0.0; https://www.tensorflow.org/); TensorFlow\n    Probability (v0.8.0; https://www.tensorflow.org/probability/)"
  },
  "fileSize": "1625.784KB",
  "citation": [
    {
      "@type": "ScholarlyArticle",
      "datePublished": "2019",
      "author": [
        {
          "@type": "Person",
          "givenName": "Nick",
          "familyName": "Golding"
        }
      ],
      "name": "{greta}: simple and scalable statistical modelling in R",
      "identifier": "10.21105/joss.01601",
      "url": "http://dx.doi.org/10.21105/joss.01601",
      "pagination": "1601",
      "@id": "https://doi.org/10.21105/joss.01601",
      "sameAs": "https://doi.org/10.21105/joss.01601",
      "isPartOf": {
        "@type": "PublicationIssue",
        "issueNumber": "40",
        "datePublished": "2019",
        "isPartOf": {
          "@type": [
            "PublicationVolume",
            "Periodical"
          ],
          "volumeNumber": "4",
          "name": "Journal of Open Source Software"
        }
      }
    }
  ],
  "releaseNotes": "https://github.com/greta-dev/greta/blob/master/NEWS.md",
  "readme": "https://github.com/greta-dev/greta/blob/master/README.md",
  "contIntegration": [
    "https://github.com/greta-dev/greta/actions",
    "https://app.codecov.io/gh/greta-dev/greta?branch=master"
  ]
}

Papers & Mentions

Total mentions: 2

PyBDA: a command line tool for automated analysis of big biological data sets

DOI: 10.1186/s12859-019-3087-8
OpenAlex ID: https://openalex.org/W2988876976
Published: November 2019

Last synced: 2 months ago

Establishment of Wolbachia Strain wAlbB in Malaysian Populations of Aedes aegypti for Dengue Control

DOI: 10.1016/j.cub.2019.11.007
OpenAlex ID: https://openalex.org/W2990923475
Published: December 2019

Last synced: 2 months ago

GitHub Events

Total

Create event: 7
Release event: 1
Issues event: 62
Watch event: 52
Delete event: 4
Issue comment event: 48
Push event: 23
Pull request event: 46
Fork event: 3

Last Year

Create event: 7
Release event: 1
Issues event: 62
Watch event: 52
Delete event: 4
Issue comment event: 48
Push event: 25
Pull request event: 46
Fork event: 3

Committers

Last synced: 5 months ago

All Time

Total Commits: 2,193
Total Committers: 20
Avg Commits per committer: 109.65
Development Distribution Score (DDS): 0.451

Past Year

Commits: 159
Committers: 2
Avg Commits per committer: 79.5
Development Distribution Score (DDS): 0.019

Top Committers

Name	Email	Commits
Nick Golding	g**5@g**m	1,205
njtierney	n**y@g**m	847
dirmeier	s**r@b**h	20
Liz Martin	L**n@L**l	20
Jeffrey Pullin	j**n@g**m	19
jdyen	j**n@g**m	19
Michael Quinn	m**n@a**u	18
Jacob Wujciak-Jens	j**b@w**e	10
Tiphaine Martin	t**n@m**u	10
Shirin Glander	s**r@c**e	7
Matt	m**l@g**m	4
Martin Ingram	i**m@s**u	3
Maëlle Salmon	m**n@y**e	2
lionel68	l**g@t**e	2
Adam Fleischhacker	a**f@u**u	2
Ben Marwick	b**k@h**m	1
Edwin Thoen	e**n@g**m	1
Lorenz	l**t@i**m	1
Paul Teetor	p**r@y**m	1
Tymoteusz Wołodźko	t****o	1

Committer Domains (Top 20 + Academic)

udel.edu: 1 thuenen.de: 1 student.unimelb.edu.au: 1 codecentric.de: 1 mssm.edu: 1 wujciak.de: 1 aya.yale.edu: 1 bsse.ethz.ch: 1

Issues and Pull Requests

Last synced: 4 months ago

All Time

Total issues: 146
Total pull requests: 106
Average time to close issues: 11 months
Average time to close pull requests: 20 days
Total issue authors: 10
Total pull request authors: 2
Average comments per issue: 0.88
Average comments per pull request: 0.26
Merged pull requests: 80
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 42
Pull requests: 50
Average time to close issues: 11 days
Average time to close pull requests: 5 days
Issue authors: 5
Pull request authors: 2
Average comments per issue: 0.38
Average comments per pull request: 0.28
Merged pull requests: 39
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

njtierney (127)
goldingn (7)
hrlai (3)
jeffreypullin (2)
AugustHao (2)
geryan (1)
rogerssam (1)
wiligl (1)
adamhsparks (1)
BertvanderVeen (1)

Pull Request Authors

njtierney (105)
t-kalinowski (1)

Top Labels

Issue Labels

low hanging fruit (15) Up Next (12) impact-1 (12) installation (11) TF2-resolved (11) TF2 (10) cholesky (8) printing (2) bug (2) later (1)

Pull Request Labels

low hanging fruit (1) installation (1)

Packages

Total packages: 2
Total downloads:
- cran 743 last-month
Total docker downloads: 45,588

Total dependent packages: 3
(may contain duplicates)
Total dependent repositories: 15
(may contain duplicates)
Total versions: 17
Total maintainers: 1

proxy.golang.org: github.com/greta-dev/greta

Documentation: https://pkg.go.dev/github.com/greta-dev/greta#section-documentation
License: other
Latest release: v0.5.0
published about 1 year ago

Versions: 7
Dependent Packages: 0
Dependent Repositories: 0

Rankings

Dependent packages count: 5.5%

Average: 5.6%

Dependent repos count: 5.8%

Last synced: 4 months ago

cran.r-project.org: greta

Simple and Scalable Statistical Modelling in R

Homepage: https://greta-stats.org
Documentation: http://cran.r-project.org/web/packages/greta/greta.pdf
License: Apache License 2.0
Latest release: 0.5.0
published about 1 year ago

Versions: 10
Dependent Packages: 3
Dependent Repositories: 15
Downloads: 743 Last month
Docker Downloads: 45,588

Rankings

Docker downloads count: 0.6%

Dependent repos count: 7.4%

Average: 12.0%

Dependent packages count: 13.7%

Downloads: 26.5%

Maintainers (1)

nicholas.tierney@gmail.com

Last synced: 4 months ago

Dependencies

.github/workflows/R-CMD-check.yaml actions

actions/checkout v2 composite
r-lib/actions/check-r-package v2 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/greta-install-deps.yaml actions

actions/checkout v2 composite
r-lib/actions/setup-pandoc v1 composite
r-lib/actions/setup-r v1 composite

.github/workflows/pkgdown.yaml actions

actions/cache v2 composite
actions/checkout v2 composite
r-lib/actions/setup-pandoc v1 composite
r-lib/actions/setup-r v1 composite

.github/workflows/pr-commands.yaml actions

actions/checkout v2 composite
r-lib/actions/pr-fetch v1 composite
r-lib/actions/pr-push v1 composite
r-lib/actions/setup-r v1 composite

.github/workflows/test-coverage.yaml actions

actions/cache v2 composite
actions/checkout v2 composite
r-lib/actions/setup-pandoc v1 composite
r-lib/actions/setup-r v1 composite

.github/workflows/touchstone-comment.yaml actions

lorenzwalthert/touchstone/actions/comment v1 composite

.github/workflows/touchstone-receive.yaml actions

actions/checkout v2 composite
lorenzwalthert/touchstone/actions/receive manual-trigger composite

DESCRIPTION cran

R >= 3.1.0 depends
R6 * imports
abind * imports
callr * imports
cli >= 3.0.0 imports
coda * imports
future >= 1.22.1 imports
glue >= 1.5.1 imports
methods * imports
parallelly >= 1.29.0 imports
progress >= 1.2.0 imports
reticulate >= 1.19.0 imports
tensorflow >= 2.7.0 imports
yesno * imports
DiagrammeR * suggests
MASS * suggests
MCMCpack * suggests
bayesplot * suggests
covr * suggests
cramer * suggests
extraDistr * suggests
fields * suggests
ggplot2 * suggests
knitr * suggests
lattice * suggests
mockery * suggests
mvtnorm * suggests
rmarkdown * suggests
rmutil * suggests
spelling * suggests
testthat >= 3.1.0 suggests
tidyverse * suggests
truncdist * suggests
withr * suggests

greta

Science Score: 95.0%

Keywords from Contributors

Scientific Fields

Repository

Basic Info

Statistics

Metadata Files

README.md

greta is an R package for writing statistical models and fitting them by MCMC and optimisation

See the website for more information, including tutorials, examples, package documentation, and the greta forum.

Installing Python Dependencies

Owner

JOSS Publication

greta: simple and scalable statistical modelling in R

Authors

Editor

Tags

CodeMeta (codemeta.json)

Papers & Mentions

PyBDA: a command line tool for automated analysis of big biological data sets

Establishment of Wolbachia Strain wAlbB in Malaysian Populations of Aedes aegypti for Dengue Control

GitHub Events

Total

Last Year

Committers

All Time

Past Year

Top Committers

Committer Domains (Top 20 + Academic)

Issues and Pull Requests

All Time

Past Year

Top Authors

Issue Authors

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

proxy.golang.org: github.com/greta-dev/greta

Rankings

cran.r-project.org: greta

Rankings

Maintainers (1)

Dependencies