Introduction | Installation | Quick start: limma | Prepare data | limma-voom | Plot | Add gene labels | Table for labels | Plotting labels | Advanced options | Axis titles | Correlation only | edgeR | DESeq2 | DESeq analysis | Plot by results name | Plot by contrast | Plot by lfcShrink | Other packages | Package support | Session info | References
Package: gg4way 1.11.0
Benjamin I Laufer
gg4way: 4way Plots of Differential Expression
4way plots enable a comparison of the logFC values from two contrasts of differential gene expression. The gg4way package creates 4way plots using the ggplot2 framework and supports popular Bioconductor objects. The package also provides information about the correlation between contrasts and significant genes of interest.
Authors:
gg4way_1.11.0.tar.gz
gg4way_1.11.0.zip(r-4.7)gg4way_1.11.0.zip(r-4.6)gg4way_1.11.0.zip(r-4.5)
gg4way_1.11.0.tgz(r-4.6-any)gg4way_1.11.0.tgz(r-4.5-any)
gg4way_1.11.0.tar.gz(r-4.7-any)gg4way_1.11.0.tar.gz(r-4.6-any)
gg4way_1.11.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
gg4way/json (API)
| # Install 'gg4way' in R: |
| install.packages('gg4way', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ben-laufer/gg4way/issues
Datasets:
- airwayFit - AirwayFit data
On BioConductor:gg4way-1.11.0(bioc 3.24)gg4way-1.10.0(bioc 3.23)
softwarevisualizationdifferentialexpressiongeneexpressiontranscriptionrnaseqsinglecellsequencing
Last updated from:6d25c07768. Checks:1 NOTE, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 212 | ||
| linux-devel-x86_64 | OK | 368 | ||
| source / vignettes | OK | 312 | ||
| linux-release-x86_64 | OK | 373 | ||
| macos-release-arm64 | OK | 173 | ||
| macos-oldrel-arm64 | OK | 178 | ||
| windows-devel | OK | 337 | ||
| windows-release | OK | 369 | ||
| windows-oldrel | OK | 506 | ||
| wasm-release | OK | 209 |
Exports:getCorgetSharedgetTotalsgg4way
Dependencies:abindBHBiobaseBiocGenericsBiocParallelclicodetoolscpp11DelayedArrayDESeq2dplyredgeRfarverformatRfutile.loggerfutile.optionsgenericsGenomicRangesggplot2ggrepelgluegtablehmsIRangesisobandjanitorlabelinglambda.rlatticelifecyclelimmalocfitlubridatemagrittrMatrixMatrixGenericsmatrixStatspillarpkgconfigpurrrR6RColorBrewerRcppRcppArmadillorlangS4ArraysS4VectorsS7scalesSeqinfosnakecasesnowSparseArraystatmodstringistringrSummarizedExperimenttibbletidyrtidyselecttimechangeutf8vctrsviridisLitewithrXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| airwayFit data | airwayFit |
| Helper Functions for 'gg4way' | extractors getCor getShared getTotals |
| Create a 4way plot | gg4way gg4way.default gg4way.DESeqDataSet gg4way.list gg4way.MArrayLM gg4way.SimpleList |
