Package: EBcoexpress 1.51.0
John A. Dawson
EBcoexpress: EBcoexpress for Differential Co-Expression Analysis
An Empirical Bayesian Approach to Differential Co-Expression Analysis at the Gene-Pair Level
Authors:
EBcoexpress_1.51.0.tar.gz
EBcoexpress_1.51.0.zip(r-4.5)EBcoexpress_1.51.0.zip(r-4.4)EBcoexpress_1.51.0.zip(r-4.3)
EBcoexpress_1.51.0.tgz(r-4.4-x86_64)EBcoexpress_1.51.0.tgz(r-4.4-arm64)EBcoexpress_1.51.0.tgz(r-4.3-x86_64)EBcoexpress_1.51.0.tgz(r-4.3-arm64)
EBcoexpress_1.51.0.tar.gz(r-4.5-noble)EBcoexpress_1.51.0.tar.gz(r-4.4-noble)
EBcoexpress_1.51.0.tgz(r-4.4-emscripten)EBcoexpress_1.51.0.tgz(r-4.3-emscripten)
EBcoexpress.pdf |EBcoexpress.html✨
EBcoexpress/json (API)
| # Install 'EBcoexpress' in R: |
| install.packages('EBcoexpress', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- fiftyGenes - The fiftyGenes expression matrix
On BioConductor:EBcoexpress-1.51.0(bioc 3.21)EBcoexpress-1.50.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:7d83d90d33. Checks:OK: 1 NOTE: 5 WARNING: 3. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 19 2024 |
| R-4.5-win-x86_64 | WARNING | Dec 19 2024 |
| R-4.5-linux-x86_64 | NOTE | Dec 19 2024 |
| R-4.4-win-x86_64 | WARNING | Dec 19 2024 |
| R-4.4-mac-x86_64 | NOTE | Dec 19 2024 |
| R-4.4-mac-aarch64 | NOTE | Dec 19 2024 |
| R-4.3-win-x86_64 | WARNING | Dec 19 2024 |
| R-4.3-mac-x86_64 | NOTE | Dec 19 2024 |
| R-4.3-mac-aarch64 | NOTE | Dec 19 2024 |
Exports:bwmccrit.funebCoexpressFullTCAECMebCoexpressMetaebCoexpressOneStepebCoexpressZeroStepinitializeHPmakeMyDpriorDiagnosticrankMyGenesshowNetworkshowPair
Dependencies:BiobaseBiocGenericsclusterEBarraysgenericslatticemclustminqaRcpp
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| A function for DC meta-analysis that combines individual study analyses | ebCoexpressMeta |
| Functions to run single-study analyses | ebCoexpressFullTCAECM ebCoexpressOneStep ebCoexpressZeroStep |
| The fiftyGenes expression matrix | fiftyGenes |
| Initializing Hyperparameters for EM | initializeHP |
| A function to convert the X expression matrix into the D correlation matrix | makeMyD |
| Visual diagnostic for the EBcoexpress prior | priorDiagnostic |
| A function to rank the genes by the number of DC pairs in which they appear | rankMyGenes |
| A function for looking at the co-expression among a small group of genes | showNetwork |
| A function for looking at a pair's differential co-expression | showPair |
| Basic utilities for the EBcoexpress package | bwmc crit.fun |