Package: EBcoexpress 1.57.0
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_1.57.0.tar.gz
EBcoexpress_1.57.0.zip(r-4.7)EBcoexpress_1.57.0.zip(r-4.6)EBcoexpress_1.57.0.zip(r-4.5)
EBcoexpress_1.57.0.tgz(r-4.6-x86_64)EBcoexpress_1.57.0.tgz(r-4.6-arm64)EBcoexpress_1.57.0.tgz(r-4.5-x86_64)EBcoexpress_1.57.0.tgz(r-4.5-arm64)
EBcoexpress_1.57.0.tar.gz(r-4.7-arm64)EBcoexpress_1.57.0.tar.gz(r-4.7-x86_64)EBcoexpress_1.57.0.tar.gz(r-4.6-arm64)EBcoexpress_1.57.0.tar.gz(r-4.6-x86_64)
EBcoexpress_1.57.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
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-1.57.0(bioc 3.24)EBcoexpress-1.56.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:1439e552c1. Checks:1 ERROR, 8 NOTE, 2 OK, 3 WARNING. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 131 | ||
| linux-devel-arm64 | NOTE | 142 | ||
| linux-devel-x86_64 | NOTE | 184 | ||
| source / vignettes | OK | 206 | ||
| linux-release-arm64 | NOTE | 127 | ||
| linux-release-x86_64 | NOTE | 175 | ||
| macos-release-arm64 | NOTE | 111 | ||
| macos-release-x86_64 | NOTE | 168 | ||
| macos-oldrel-arm64 | NOTE | 138 | ||
| macos-oldrel-x86_64 | NOTE | 198 | ||
| windows-devel | WARNING | 95 | ||
| windows-release | WARNING | 131 | ||
| windows-oldrel | WARNING | 90 | ||
| wasm-release | OK | 99 |
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 |