Science Score: 23.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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○codemeta.json file
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○.zenodo.json file
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✓DOI references
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (9.9%) to scientific vocabulary
Repository
FastStepGraph
Basic Info
- Host: GitHub
- Owner: juancolonna
- License: other
- Language: HTML
- Default Branch: main
- Size: 12.7 MB
Statistics
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Fast Step Graph
Fast Step Graph is an optimized implementation in R of the Stepwise approach used for discovering high-dimensional Gaussian Graphical Models. It aims to accurately estimate the $\mathbf{\Omega}$ precision matrix when dealing with datasets where the number of features is significantly larger than the number of samples ($p >> n$), such as in genomics.
This implementation builds upon the original code available at link, which accompanies the associated research paper. Fast Step Graph enhances the computational efficiency of the original code to handle much larger graph structures than previously reported, while reducing the training time. Several improvements have been made, including the elimination of redundant code, utilization of column-wise data structures (better for R), avoid list creation, manipulation and expansion within loops, and the integration of a faster subroutine for regression. Additionally, this implementation addresses a bug introduced in the original code.
Despite these enhancements, the primary bottleneck of Fast Step Graph lies in the requirement of substantial memory resources $\text{Memory} \propto \Big(\frac{p(p-1)}{2}\Big)$ for storing the entire graph, particularly when $p$ grows.
Clone this repository or simply download the .zip file and follow the instructions in this link to see an example.
How to cite this repository?
Owner
- Name: Dr. Juan Gabriel Colonna
- Login: juancolonna
- Kind: user
- Location: Brazil
- Company: @ufam, @icomp
- Website: https://sites.google.com/view/juancolonna/home
- Repositories: 1
- Profile: https://github.com/juancolonna
GitHub Events
Total
- Watch event: 1
Last Year
- Watch event: 1
Packages
- Total packages: 1
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Total downloads:
- cran 172 last-month
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 2
- Total maintainers: 1
cran.r-project.org: FastStepGraph
A Fast Algorithm for Sparse Precision Matrix Estimation
- Homepage: https://github.com/juancolonna/FastStepGraph
- Documentation: http://cran.r-project.org/web/packages/FastStepGraph/FastStepGraph.pdf
- License: MIT + file LICENSE
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Latest release: 0.1.1
published over 2 years ago
Rankings
Maintainers (1)
Dependencies
- R >= 4.3 depends
- MASS >= 7.3 imports
- doParallel >= 1.0 imports
- foreach >= 1.5 imports
- devtools * suggests
- knitr * suggests
- rmarkdown * suggests