bayesfmri

BayesfMRI R package

https://github.com/mandymejia/bayesfmri

Science Score: 39.0%

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CITATION.cff file
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codemeta.json file
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Found 4 DOI reference(s) in README
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Scientific vocabulary similarity
Low similarity (20.0%) to scientific vocabulary

Last synced: 11 months ago · JSON representation

Repository

BayesfMRI R package

Basic Info

Host: GitHub
Owner: mandymejia
License: gpl-3.0
Language: HTML
Default Branch: master
Homepage:
Size: 1.76 GB

Statistics

Stars: 29
Watchers: 3
Forks: 9
Open Issues: 3
Releases: 3

Created about 7 years ago · Last pushed about 1 year ago

Metadata Files

Readme Changelog License

README.Rmd

---
output: github_document
---



# BayesfMRI 


[![CRAN status](https://www.r-pkg.org/badges/version/BayesfMRI)](https://cran.r-project.org/package=BayesfMRI)
[![R-CMD-check](https://github.com/mandymejia/BayesfMRI/workflows/R-CMD-check/badge.svg)](https://github.com/mandymejia/BayesfMRI/actions)
[![Codecov test coverage](https://codecov.io/gh/mandymejia/BayesfMRI/branch/master/graph/badge.svg)](https://app.codecov.io/gh/mandymejia/BayesfMRI?branch=master)


The `BayesfMRI` R package includes the main function `BayesGLM`, which implements a spatial Bayesian GLM for task fMRI. It also contains a wrapper function `BayesGLM_cifti`, for CIFTI cortical surface fMRI data.



## Citation

If you use `BayesfMRI` please cite the following papers:


| Name | APA Citation |
| -------------  | ------------- |
| [Spatial Bayesian GLM](https://doi.org/10.1080/01621459.2019.1611582) | Mejia, A. F., Yue, Y., Bolin, D., Lindgren, F., & Lindquist, M. A. (2020). A Bayesian general linear modeling approach to cortical surface fMRI data analysis. Journal of the American Statistical Association, 115(530), 501-520. | 
| [Multi-session Spatial Bayesian GLM](https://doi.org/10.1016/j.neuroimage.2022.118908) | Spencer, D., Yue, Y. R., Bolin, D., Ryan, S., & Mejia, A. F. (2022). Spatial Bayesian GLM on the cortical surface produces reliable task activations in individuals and groups. NeuroImage, 249, 118908. | 

You can also obtain citation information from within R like so:

``` r
citation("BayesfMRI")
```

## Installation

You can install `BayesfMRI` from [CRAN](https://cran.r-project.org/) with:

``` r
install.packages("BayesfMRI")
```

## Vignette

See [this link](https://htmlpreview.github.io/?https://github.com/mandymejia/BayesfMRI/blob/10.0/vignettes/BayesfMRI_vignette.html) to view the tutorial vignette.

## Important Note on Dependencies:

`BayesfMRI` depends on the `ciftiTools` package, which requires an installation of Connectome Workbench.  It can be installed from the [HCP website](https://www.humanconnectome.org/software/get-connectome-workbench).



The INLA package is required, which, due to a CRAN policy, will not be installed automatically. You can obtain it by running `install.packages("INLA",repos=c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"), dep=FALSE) `. For more information, see [the INLA website](https://www.r-inla.org/download-install).  **Note: INLA must be installed before installing `BayesfMRI`.**
 
On Mac platforms, an installation of [Xcode](https://mac.r-project.org/tools/) is necessary to build the C++ code included in `BayesfMRI`.

Owner

Name: Mandy Mejia
Login: mandymejia
Kind: user
Location: Bloomington, IN, USA
Company: Indiana University Department of Statistics

Website: statmindlab.com
Twitter: mandyfmejia
Repositories: 13
Profile: https://github.com/mandymejia

Assistant Professor in the Department of Statistics at Indiana University. PI of the StatMIND (Statistical Methods for Individualized Neuro-Discovery) lab.

GitHub Events

Total

Create event: 3
Release event: 1
Issues event: 3
Watch event: 5
Issue comment event: 10
Push event: 19
Pull request event: 2
Fork event: 2

Last Year

Create event: 3
Release event: 1
Issues event: 3
Watch event: 5
Issue comment event: 10
Push event: 19
Pull request event: 2
Fork event: 2

Issues and Pull Requests

Last synced: 11 months ago

All Time

Total issues: 3
Total pull requests: 1
Average time to close issues: 9 months
Average time to close pull requests: less than a minute
Total issue authors: 3
Total pull request authors: 1
Average comments per issue: 1.33
Average comments per pull request: 0.0
Merged pull requests: 1
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 2
Pull requests: 1
Average time to close issues: 7 days
Average time to close pull requests: less than a minute
Issue authors: 2
Pull request authors: 1
Average comments per issue: 1.0
Average comments per pull request: 0.0
Merged pull requests: 1
Bot issues: 0
Bot pull requests: 0

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Top Authors

Issue Authors

JAQuent (1)
edc5208 (1)

Pull Request Authors

damondpham (4)

Top Labels

Issue Labels

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Packages

Total packages: 1
Total downloads:
- cran 176 last-month

Total dependent packages: 0
Total dependent repositories: 0
Total versions: 3
Total maintainers: 1

cran.r-project.org: BayesfMRI

Spatial Bayesian Methods for Task Functional MRI Studies

Homepage: https://github.com/mandymejia/BayesfMRI
Documentation: http://cran.r-project.org/web/packages/BayesfMRI/BayesfMRI.pdf
License: GPL-3
Latest release: 0.10.1
published over 1 year ago

Versions: 3
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 176 Last month

Rankings

Forks count: 11.0%

Stargazers count: 12.7%

Average: 26.6%

Dependent packages count: 28.3%

Dependent repos count: 36.9%

Downloads: 44.3%

Maintainers (1)

mandy.mejia@gmail.com