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Open Source Science

https://github.com/antsx/antsrcore

Rcpp bindings for the C++ ANTs library used by the ANTsR package

https://github.com/antsx/antsrcore

Science Score: 36.0%

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
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    7 of 16 committers (43.8%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (16.7%) to scientific vocabulary

Keywords from Contributors

image-registration neuroimaging medical-image-processing image-analysis medical-imaging convolutional-neural-networks insight-toolkit itk numfocus open-science
Last synced: 10 months ago · JSON representation

Repository

Rcpp bindings for the C++ ANTs library used by the ANTsR package

Basic Info
  • Host: GitHub
  • Owner: ANTsX
  • Language: C++
  • Default Branch: master
  • Homepage:
  • Size: 4.63 MB
Statistics
  • Stars: 9
  • Watchers: 5
  • Forks: 9
  • Open Issues: 21
  • Releases: 68
Created over 9 years ago · Last pushed about 1 year ago
Metadata Files
Readme

README.md

ANTsRCore

R-CMD-check

The ANTsRCore package provides Rcpp bindings for the C++ biomedical image processing library ANTs. This package should not be used directly, as it is meant to provide the core functionality for the user-facing ANTsR package.


Installation

The package can be installed the pre-compiled binaries (fast) or from source.

Pre-compiled binaries

The fastest way to install ANTsRCore is from pre-compiled binaries made available on the Releases Page. Download the relevant version and install it from the command line:

R CMD INSTALL ANTsRCore_*.tgz

From source using devtools

To install ANTsRCore from source, you can use devtools to install the latest version of the code directly form GitHub. This should also automatically install the main dependencies.

R devtools::install_github('ANTsX/ANTsR')

From source using R CMD INSTALL

Alternatively, you can clone and install ANTsRCore and its main dependency (ITKR), then install them as you would traditional R source packages.

First, clone the repositories:

sh $ git clone https://github.com/stnava/ITKR.git $ git clone https://github.com/ANTsX/ANTsRCore.git

Install the package as follows:

sh $ R CMD INSTALL ITKR $ R CMD INSTALL ANTsRCore


Usage

Functions from this package should never be exposed directly to any users. Instead, this package should always be wrapped by user-facing functions. All library functions can be found in the R/RcppExports.R file which is automatically generated during the build.


Developer notes

Using devtools to install and document the package is useful but requires rebuilding the package from scratch every time it's run. If you are going to develop on the package, it is best to install it with R CMD INSTALL.

All documentation is done through Rcpp within the cpp files in the src/ directory. New Rcpp functions are imported to R by adding the // [[Rcpp::export]] tag and then running Rcpp::compileAttributes(). You should never have to edit any R files directly.

Authors

Brian B. Avants (maintainer), Benjamin M. Kandel, Jeff T. Duda, Philip A. Cook, Nicholas J. Tustison

License

Apache License (>=2.0)


Contributing

If you have a question or feature request, please create an issue on GitHub. Any issues related to ANTsR should preferably be posted in that repository.

Owner

  • Name: Advanced Normalization Tools Ecosystem
  • Login: ANTsX
  • Kind: organization
  • Location: Cambridge, MA; Philadelphia, PA; Southern California

Ecosystem supporting multi-modality biomedical image analysis across programming languages.

GitHub Events

Total
  • Issues event: 10
  • Delete event: 3
  • Issue comment event: 6
  • Push event: 13
  • Pull request event: 5
  • Create event: 4
Last Year
  • Issues event: 10
  • Delete event: 3
  • Issue comment event: 6
  • Push event: 13
  • Pull request event: 5
  • Create event: 4

Committers

Last synced: about 1 year ago

All Time
  • Total Commits: 1,195
  • Total Committers: 16
  • Avg Commits per committer: 74.688
  • Development Distribution Score (DDS): 0.344
Past Year
  • Commits: 10
  • Committers: 5
  • Avg Commits per committer: 2.0
  • Development Distribution Score (DDS): 0.7
Top Committers
Name Email Commits
muschellij2 m****2@g****m 784
stnava s****a@g****m 286
Jeffrey Duda j****a@g****m 41
Nick Tustison n****n@g****m 37
ncullen93 n****n@m****e 26
dorianps d****s 4
adigherman a****g@j****u 4
Philip Cook c****a@p****u 3
Gregory Jefferis j****s@g****m 2
Jeffrey Duda j****a@J****l 2
Bennet Fauber b****t@u****u 1
stnava s****a@s****l 1
ncullen93 n****h@d****u 1
Wlodek Bzyl m****b@u****l 1
Rodney Lewis r****s@k****k 1
NC Cullen n****h@d****u 1
Committer Domains (Top 20 + Academic)
dartmouth.edu: 2 kcl.ac.uk: 1 ug.edu.pl: 1 umich.edu: 1 pennmedicine.upenn.edu: 1 jhu.edu: 1 med.lu.se: 1

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 38
  • Total pull requests: 62
  • Average time to close issues: 6 months
  • Average time to close pull requests: 9 days
  • Total issue authors: 13
  • Total pull request authors: 9
  • Average comments per issue: 3.11
  • Average comments per pull request: 0.97
  • Merged pull requests: 54
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 2
  • Pull requests: 6
  • Average time to close issues: 3 days
  • Average time to close pull requests: about 1 month
  • Issue authors: 2
  • Pull request authors: 4
  • Average comments per issue: 1.0
  • Average comments per pull request: 0.67
  • Merged pull requests: 5
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • muschellij2 (21)
  • stnava (3)
  • dorianps (2)
  • ntustison (2)
  • mwaqar99 (1)
  • cookpa (1)
  • yangwei1993 (1)
  • vgonzenbach (1)
  • sromanz (1)
  • dipterix (1)
  • boboshaq (1)
  • SlicerMorph (1)
  • muratmaga (1)
Pull Request Authors
  • ntustison (23)
  • ncullen93 (13)
  • muschellij2 (12)
  • stnava (7)
  • cookpa (7)
  • jeffduda (7)
  • JustScreaming (2)
  • dorianps (1)
  • adigherman (1)
Top Labels
Issue Labels
Pull Request Labels

Dependencies

DESCRIPTION cran
  • R >= 2.10 depends
  • methods * depends
  • ITKR >= 0.5.0 imports
  • Rcpp * imports
  • RcppEigen * imports
  • magrittr * imports
  • stats * imports
  • tools * imports
  • utils * imports
  • abind * suggests
  • colormap * suggests
  • covr * suggests
  • knitr * suggests
  • pixmap * suggests
  • rmarkdown * suggests
  • testthat * suggests
  • viridis * suggests
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  • adigherman/actions/get-repo-name master composite
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  • r-lib/actions/setup-pandoc master composite
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  • r-lib/actions/setup-tinytex master composite
.github/workflows/autoci_pkgdown.yml actions
  • actions/checkout v2 composite
  • r-lib/actions/setup-pandoc master composite
  • r-lib/actions/setup-r master composite