GeneExpressionSignature
Gene Expression Signature based Similarity Metric
Science Score: 13.0%
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 2 DOI reference(s) in README -
○Academic publication links
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○Committers with academic emails
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (7.1%) to scientific vocabulary
Keywords from Contributors
Repository
Gene Expression Signature based Similarity Metric
Basic Info
- Host: GitHub
- Owner: yiluheihei
- Language: R
- Default Branch: master
- Size: 2.86 MB
Statistics
- Stars: 1
- Watchers: 2
- Forks: 1
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
GeneExpressionSignature: an R package for discovering functional connections using gene expression signatures
This package gives the implementations of the gene expression signature and its distance to each. Gene expression signature is represented as a list of genes whose expression is correlated with a biological state of interest. And its distance is defined using a nonparametric, rank-based pattern-matching strategy based on the Kolmogorov-Smirnov statistic. Gene expression signature and its distance can be used to detect similarities among the signatures of drugs, diseases, and biological states of interest。
Installation
You can install the released version of GeneExpressionSignature from Bioconductor with:
r
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install(GeneExpressionSignature)
Or install the development version from github
r
if (!requireNamespace("remotes", quietly=TRUE))
install.packages("remotes")
remotes::install_github("yiluheihei/GeneExpressionSignature")
Citation
Authors: Yang Cao https://caoyang.tech
If you use this package in your research, please cite:
Li F, Cao Y, Han L, Cui X, Xie D, Wang S, Bo X. GeneExpressionSignature: an R package for discovering functional connections using gene expression signatures. Omics: a journal of integrative biology, 2013 17(2):116-8.
Contribution
Your contributions are always welcome!
Please note that the GeneExpressionSignature project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.
Owner
- Name: Yang Cao
- Login: yiluheihei
- Kind: user
- Location: Tianjin
- Website: https://www.caoyang.tech
- Repositories: 125
- Profile: https://github.com/yiluheihei
R, Bioinformatics
GitHub Events
Total
Last Year
Committers
Last synced: almost 3 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Dan Tenenbaum | d****a@f****g | 21 |
| Yang Cao | a****o@g****m | 14 |
| Nitesh Turaga | n****a@g****m | 8 |
| Herve Pages | h****s@f****g | 4 |
| Hervé Pagès | h****s@f****g | 2 |
| vobencha | v****n@r****g | 2 |
| vobencha | v****a@g****m | 2 |
| Nishant Gopalakrishnan | n****k@f****g | 1 |
| yiluheihei | y****i@g****m | 1 |
| Sonali Arora | s****a@f****g | 1 |
| Martin Morgan | m****n@f****g | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: over 1 year ago
All Time
- Total issues: 1
- Total pull requests: 0
- Average time to close issues: 2 days
- Average time to close pull requests: N/A
- Total issue authors: 1
- Total pull request authors: 0
- Average comments per issue: 1.0
- Average comments per pull request: 0
- Merged pull requests: 0
- 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
Top Authors
Issue Authors
- zhangxiner2 (1)
Pull Request Authors
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- bioconductor 32,053 total
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 5
- Total maintainers: 1
bioconductor.org: GeneExpressionSignature
Gene Expression Signature based Similarity Metric
- Homepage: https://github.com/yiluheihei/GeneExpressionSignature
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/GeneExpressionSignature/inst/doc/GeneExpressionSignature.pdf
- License: GPL-2
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Latest release: 1.54.0
published over 1 year ago
Rankings
Maintainers (1)
Dependencies
- R >= 4.0 depends
- Biobase * imports
- methods * imports
- stats * imports
- BiocStyle * suggests
- GEOquery * suggests
- apcluster * suggests
- knitr * suggests
- rmarkdown * suggests