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https://github.com/boydorr/sparkjags

This package contains JAGS models and associated functionality for use with SpARK project data

https://github.com/boydorr/sparkjags

Science Score: 13.0%

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    Low similarity (10.1%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

This package contains JAGS models and associated functionality for use with SpARK project data

Basic Info
  • Host: GitHub
  • Owner: boydorr
  • Language: R
  • Default Branch: master
  • Homepage:
  • Size: 10.1 MB
Statistics
  • Stars: 1
  • Watchers: 2
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created almost 6 years ago · Last pushed about 4 years ago
Metadata Files
Readme

README.md

SpARKjags

test-build codecov CodeFactor

Table of contents

General info

This package contains JAGS models and associated functionality for use with SpARK project data.

Setup

To install this package in R, run: R install.packages("devtools") devtools::install_github("soniamitchell/SpARKjags") Note that you must have access to the SpARK project datasets for any of this code to work.

How to

List all of the models included in the SpARKjags package

R list_models()

Run one of the SpARKjags models

```R

Generate JAGS input dataset

data <- jags_data(classification = "Carbapenem", categories = "human", pathogen = "Klebsiella pneumoniae", removeQuinPen = T)

Run the model

path <- runSpARKjagsmodel(data = data, SpARKjagsmodel = "individualmodels/h.R", saveto = "results/individualmodels") `` TherunSpARKjagsmodel()` function will return the path of the model output.

Read model output into R

R results <- get_model(path = path)

Owner

  • Name: Boyd Orr
  • Login: boydorr
  • Kind: organization
  • Location: Glasgow, UK

Boyd Orr Centre for Population and Ecosystem Health, University of Glasgow

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Dependencies

.github/workflows/test-build.yaml actions
  • actions/cache v1 composite
  • actions/checkout v2 composite
  • actions/upload-artifact main composite
  • r-lib/actions/setup-pandoc master composite
  • r-lib/actions/setup-r master composite
.github/workflows/test-coverage.yaml actions
  • actions/cache v2 composite
  • actions/checkout v2 composite
  • r-lib/actions/setup-pandoc master composite
  • r-lib/actions/setup-r master composite
DESCRIPTION cran
  • R >= 3.5 depends
  • GGally * imports
  • SpARK * imports
  • assertthat * imports
  • coda * imports
  • dplyr * imports
  • egg * imports
  • flextable * imports
  • forcats * imports
  • ggmcmc * imports
  • ggplot2 * imports
  • ggthemes * imports
  • loo * imports
  • lubridate * imports
  • purrr * imports
  • reshape2 * imports
  • rjags * imports
  • runjags * imports
  • stats * imports
  • tidyr * imports
  • testthat * suggests