Package: SubpathwayLNCE 1.0
SubpathwayLNCE: Identify Signal Subpathways Competitively Regulated by LncRNAs Based on ceRNA Theory
Identify dysfunctional subpathways competitively regulated by lncRNAs through integrating lncRNA-mRNA expression profile and pathway topologies.
Authors:
SubpathwayLNCE_1.0.tar.gz
SubpathwayLNCE_1.0.zip(r-4.5)SubpathwayLNCE_1.0.zip(r-4.4)SubpathwayLNCE_1.0.zip(r-4.3)
SubpathwayLNCE_1.0.tgz(r-4.4-any)SubpathwayLNCE_1.0.tgz(r-4.3-any)
SubpathwayLNCE_1.0.tar.gz(r-4.5-noble)SubpathwayLNCE_1.0.tar.gz(r-4.4-noble)
SubpathwayLNCE_1.0.tgz(r-4.4-emscripten)SubpathwayLNCE_1.0.tgz(r-4.3-emscripten)
SubpathwayLNCE.pdf |SubpathwayLNCE.html✨
SubpathwayLNCE/json (API)
| # Install 'SubpathwayLNCE' in R: |
| install.packages('SubpathwayLNCE', repos = c('https://shixinrui.r-universe.dev', 'https://cloud.r-project.org')) |
- envData - The variables in the environment variable 'envData' of the system
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 9 years agofrom:62000ed228. Checks:OK: 5 NOTE: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Aug 22 2024 |
| R-4.5-win | NOTE | Aug 22 2024 |
| R-4.5-linux | NOTE | Aug 22 2024 |
| R-4.4-win | OK | Aug 22 2024 |
| R-4.4-mac | OK | Aug 22 2024 |
| R-4.3-win | OK | Aug 22 2024 |
| R-4.3-mac | OK | Aug 22 2024 |
Exports:ExpProcessgetBackgroundLncgetEdgeLabelgetEdgeLtyGetenvirGetExampleDatagetInteGraphListgetInteUMGraphgetKGeneFromGenegetLayoutgetLncGenePairsgetLocSubGraphLncgetNodeLabelgetOneNodePathgetSymbolFromGeneidentifyLncGraphWinitializeplotAnnGraphplotGraphLprintGraphW
Dependencies:BHBiasedUrnBiocGenericsclicpp11gluegraphigraphlatticelifecyclemagrittrMatrixpkgconfigRBGLrlangvctrs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| The variables in the environment variable 'envData' of the system | envData |
| Get the background of molecules | getBackgroundLnc |
| Get the environment data | GetExampleData |
| Get the reconstructed signal pathway graphs | getInteGraphList |
| Get the reconstructed condition-specific lncRNA-regulated signal pathways | getInteUMGraph |
| Get the co-express lncRNA-mRNA interactions | getLncGenePairs |
| Get the located signal subpathways | getLocSubGraphLnc |
| Annotate and identify subpathways | identifyLncGraphW |
| Visualize annotated pathway graphs | plotAnnGraph |
| Visualize a pathway graph | plotGraphL |
| Print the results of graph annotation and identification | printGraphW |
