derfinderPlot
Plotting functions for derfinder
Bioconductor version: 3.23 · Package version: 1.46.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
This package provides plotting functions for results from the derfinder package. This helps separate the graphical dependencies required for making these plots from the core functionality of derfinder.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("derfinderPlot")Details
| Maintainer | Leonardo Collado-Torres <lcolladotor@gmail.com> |
| Author | Leonardo Collado-Torres [aut, cre] (ORCID: <https://orcid.org/0000-0003-2140-308X>), Andrew E. Jaffe [aut] (ORCID: <https://orcid.org/0000-0001-6886-1454>), Jeffrey T. Leek [aut, ths] (ORCID: <https://orcid.org/0000-0002-2873-2671>) |
| License | Artistic-2.0 |
| URL | https://github.com/leekgroup/derfinderPlot |
| Bug Reports | https://support.bioconductor.org/t/derfinderPlot |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | DifferentialExpression, ImmunoOncology, RNASeq, Sequencing, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/derfinderPlot/ |
Citation
From within R, enter citation("derfinderPlot"):
Leonardo Collado-Torres, Andrew E. Jaffe, Jeffrey T. Leek. derfinderPlot: Plotting functions for derfinder. doi:10.18129/B9.bioc.derfinderPlot, R package version 1.46.0, https://bioconductor.org/packages/derfinderPlot.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | derfinderPlot_1.46.0.tar.gz |
| Windows binary (x86_64) | derfinderPlot_1.46.0.zip |
| macOS binary (arm64) | derfinderPlot_1.46.0.tgz |
| macOS binary (x86_64) | derfinderPlot_1.46.0.tgz |
Dependencies
Depends: R (>= 3.2)
Imports: derfinder (>= 1.1.0), Seqinfo, GenomeInfoDb (>= 1.45.9), GenomicFeatures, GenomicRanges (>= 1.17.40), ggbio (>= 1.13.13), ggplot2, graphics, grDevices, IRanges (>= 1.99.28), limma, methods, plyr, RColorBrewer, reshape2, S4Vectors (>= 0.9.38), scales, utils
Suggests: biovizBase (>= 1.27.2), bumphunter (>= 1.7.6), derfinderData (>= 0.99.0), sessioninfo, knitr (>= 1.6), BiocStyle (>= 2.5.19), org.Hs.eg.db, RefManageR, rmarkdown (>= 0.3.3), testthat, TxDb.Hsapiens.UCSC.hg19.knownGene, covr
Reverse dependencies
Imports Me (1): recountWorkflow
Suggests Me (3): derfinder, GenomicState, regionReport