Package: GeneNet 1.2.16
Korbinian Strimmer
GeneNet: Modeling and Inferring Gene Networks
Analyzes gene expression (time series) data with focus on the inference of gene networks. In particular, GeneNet implements the methods of Schaefer and Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007) for learning large-scale gene association networks (including assignment of putative directions).
Authors:
GeneNet_1.2.16.tar.gz
GeneNet_1.2.16.tar.gz(r-4.5-noble)GeneNet_1.2.16.tar.gz(r-4.4-noble)
GeneNet_1.2.16.tgz(r-4.4-emscripten)GeneNet_1.2.16.tgz(r-4.3-emscripten)
GeneNet.pdf |GeneNet.html✨
GeneNet/json (API)
NEWS
| # Install 'GeneNet' in R: |
| install.packages('GeneNet', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/strimmerlab/software/issues
- arth800.descr - Time Series Expression Data for 800 Arabidopsis Thaliana Genes
- arth800.expr - Time Series Expression Data for 800 Arabidopsis Thaliana Genes
- arth800.mexpr - Time Series Expression Data for 800 Arabidopsis Thaliana Genes
- arth800.name - Time Series Expression Data for 800 Arabidopsis Thaliana Genes
- arth800.probe - Time Series Expression Data for 800 Arabidopsis Thaliana Genes
- arth800.symbol - Time Series Expression Data for 800 Arabidopsis Thaliana Genes
- ecoli - Microarray Time Series Data for 102 E. Coli Genes Genes
Last updated 3 years agofrom:6c8654e69b. Checks:OK: 1 NOTE: 1. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 17 2024 |
| R-4.5-linux | NOTE | Dec 17 2024 |
Exports:cor0.testedge.infoextract.networkggm.estimate.pcorggm.list.edgesggm.simulate.dataggm.simulate.pcorhotelling.transformkappa2nn2kappanetwork.make.dotnetwork.make.graphnetwork.test.edgesnode.degreenum.nodesz.transform
Dependencies:corpcorfdrtoollongitudinal
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| The GeneNet package | GeneNet-package |
| Time Series Expression Data for 800 Arabidopsis Thaliana Genes | arth800 arth800.descr arth800.expr arth800.mexpr arth800.name arth800.probe arth800.symbol |
| Test of Vanishing (Partial) Correlation | cor0.test |
| Microarray Time Series Data for 102 E. Coli Genes Genes | ecoli |
| Graphical Gaussian Models: Small Sample Estimation of Partial Correlation | ggm.estimate.pcor |
| Graphical Gaussian Models: Simulation of Data | ggm.simulate.data |
| Graphical Gaussian Models: Simulation of Networks | ggm.simulate.pcor |
| Relationship Between Sample Size and the Degree of Freedom of Correlation Distribution | kappa2n n2kappa |
| Graphical Gaussian Models: Plotting the Network | edge.info network.make.dot network.make.graph node.degree num.nodes |
| Graphical Gaussian Models: Assess Significance of Edges (and Directions) | extract.network network.test.edges |
| Variance-Stabilizing Transformations of the Correlation Coefficient | hotelling.transform z.transform |