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fido

Multinomial Logistic-Normal Models (really fast)

https://github.com/jsilve24/fido

Science Score: 46.0%

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
  • ✓
    DOI references
    Found 1 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: arxiv.org, biorxiv.org
  • ✓
    Committers with academic emails
    5 of 9 committers (55.6%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (15.2%) to scientific vocabulary
Last synced: 7 months ago · JSON representation

Repository

Multinomial Logistic-Normal Models (really fast)

Basic Info
Statistics
  • Stars: 21
  • Watchers: 4
  • Forks: 7
  • Open Issues: 3
  • Releases: 0
Created over 5 years ago · Last pushed about 1 year ago
Metadata Files
Readme

README.md

<!-- badges: start --> R-CMD-check License <!-- badges: end -->

fido (formerly stray)

Multinomial Logistic-Normal Models (really fast)
its a little *tar*-ball of joy

Citation

Silverman, JD, Roche, K, Holmes, ZC, David, LA, and Mukherjee, S. Journal of Machine Learning Research. 23(7), 2022:1−42.

License

All source code freely availale under GPL-3 License.

Installation

r install.packages("fido") Or to download the development version from GitHub:

r devtools::install_github("jsilve24/fido", ref="develop")

A few notes:

  • As of version 1.0.0, fido is now on CRAN.
  • There are a few installation options that can greatly speed fido up (often by as much as 10-50 fold). For a more detailed description of installation, take a look at the installation page.
  • Vignettes are prebuilt on the fido webpage. If you want vignettes to build locally during package installation you must also pass the build=TRUE and build_opts = c("--no-resave-data", "--no-manual") options to install_github.

Vignettes

Research Using fido

Bugs/Feature requests

Have you checked out our FAQ?

I appreciate bug reports and feature requests. Please post to the github issue tracker here.

Owner

  • Name: Justin Silverman
  • Login: jsilve24
  • Kind: user
  • Location: Pennsylvania

Assistant Professor at Penn State University.

GitHub Events

Total
  • Watch event: 1
  • Push event: 4
Last Year
  • Watch event: 1
  • Push event: 4

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 328
  • Total Committers: 9
  • Avg Commits per committer: 36.444
  • Development Distribution Score (DDS): 0.256
Past Year
  • Commits: 12
  • Committers: 1
  • Avg Commits per committer: 12.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Justin Silverman j****4@g****m 244
michellepistner p****r@p****u 68
Kim Roche k****e@g****m 6
Jamie Morton j****n@e****u 2
Jim Hester j****r@g****m 2
Kimberly Roche k****8@c****u 2
LAD Lab l****b@L****u 2
Kimberly Roche k****8@x****u 1
mortonjt j****n@g****m 1
Committer Domains (Top 20 + Academic)
x2-01-1.genome.duke.edu: 1 lads-imac.dhe.duke.edu: 1 c1-01-1.genome.duke.edu: 1 eng.ucsd.edu: 1 psu.edu: 1

Issues and Pull Requests

Last synced: 8 months ago

All Time
  • Total issues: 10
  • Total pull requests: 2
  • Average time to close issues: 5 months
  • Average time to close pull requests: almost 2 years
  • Total issue authors: 6
  • Total pull request authors: 2
  • Average comments per issue: 3.3
  • Average comments per pull request: 0.5
  • Merged pull requests: 2
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • mortonjt (3)
  • ETaSky (2)
  • mikemc (2)
  • PollyTikhonova (1)
  • danfulop (1)
  • jsilve24 (1)
Pull Request Authors
  • mikemc (2)
  • mortonjt (1)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 350 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 8
  • Total maintainers: 1
cran.r-project.org: fido

Bayesian Multinomial Logistic Normal Regression

  • Versions: 8
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 350 Last month
Rankings
Forks count: 9.6%
Stargazers count: 14.1%
Dependent repos count: 23.8%
Average: 25.9%
Dependent packages count: 28.7%
Downloads: 53.2%
Maintainers (1)
JustinSilverman@psu.edu
Last synced: 8 months ago

Dependencies

DESCRIPTION cran
  • R >= 4.1.0 depends
  • Rcpp >= 0.12.17 imports
  • dplyr * imports
  • ggplot2 * imports
  • purrr * imports
  • rlang * imports
  • tidybayes * imports
  • tidyr * imports
  • MCMCpack * suggests
  • MicrobeDS * suggests
  • ape * suggests
  • knitr * suggests
  • numDeriv * suggests
  • phyloseq * suggests
  • rmarkdown * suggests
  • testthat >= 2.1.0 suggests
.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v2 composite
  • actions/upload-artifact main composite
  • r-lib/actions/check-r-package v1 composite
  • r-lib/actions/setup-pandoc v1 composite
  • r-lib/actions/setup-r v1 composite
  • r-lib/actions/setup-r-dependencies v1 composite