derfinderPlot
Plotting functions for derfinder
Bioconductor version: Release (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 |