derfinderPlot
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see derfinderPlot.
Plotting functions for derfinder
Bioconductor version: 3.19
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.
Author: Leonardo Collado-Torres [aut, cre] 
, Andrew E. Jaffe [aut] , Jeffrey T. Leek [aut, ths]
Maintainer: Leonardo Collado-Torres <lcolladotor at gmail.com>
citation("derfinderPlot")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("derfinderPlot")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("derfinderPlot")| Introduction to derfinderPlot | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, ImmunoOncology, RNASeq, Sequencing, Software, Visualization |
| Version | 1.38.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (10 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2) |
| Imports | derfinder(>= 1.1.0), GenomeInfoDb(>= 1.3.3), 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 |
| System Requirements | |
| URL | https://github.com/leekgroup/derfinderPlot |
| Bug Reports | https://support.bioconductor.org/t/derfinderPlot |
See More
| 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 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | recountWorkflow |
| Suggests Me | derfinder, regionReport, GenomicState |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | derfinderPlot_1.38.0.tar.gz |
| Windows Binary (x86_64) | derfinderPlot_1.38.0.zip (64-bit only) |
| macOS Binary (x86_64) | derfinderPlot_1.38.0.tgz |
| macOS Binary (arm64) | derfinderPlot_1.38.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/derfinderPlot |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/derfinderPlot |
| Bioc Package Browser | https://code.bioconductor.org/browse/derfinderPlot/ |
| Package Short Url | https://bioconductor.org/packages/derfinderPlot/ |
| Package Downloads Report | Download Stats |