DEScan2
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see DEScan2.
Differential Enrichment Scan 2
Bioconductor version: 3.19
Integrated peak and differential caller, specifically designed for broad epigenomic signals.
Author: Dario Righelli [aut, cre], John Koberstein [aut], Bruce Gomes [aut], Nancy Zhang [aut], Claudia Angelini [aut], Lucia Peixoto [aut], Davide Risso [aut]
Maintainer: Dario Righelli <dario.righelli at gmail.com>
citation("DEScan2")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DEScan2")
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("DEScan2")
DEScan2 Vignette | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Coverage, Epigenetics, ImmunoOncology, PeakDetection, Sequencing, Software |
Version | 1.24.0 |
In Bioconductor since | BioC 3.7 (R-3.5) (6.5 years) |
License | Artistic-2.0 |
Depends | R (>= 3.5), GenomicRanges |
Imports | BiocParallel, BiocGenerics, ChIPpeakAnno, data.table, DelayedArray, GenomeInfoDb, GenomicAlignments, glue, IRanges, plyr, Rcpp (>= 0.12.13), rtracklayer, S4Vectors(>= 0.23.19), SummarizedExperiment, tools, utils |
System Requirements | |
URL |
See More
Suggests | BiocStyle, knitr, rmarkdown, testthat, edgeR, limma, EDASeq, RUVSeq, RColorBrewer, statmod |
Linking To | Rcpp, RcppArmadillo |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | DEScan2_1.24.0.tar.gz |
Windows Binary (x86_64) | DEScan2_1.24.0.zip |
macOS Binary (x86_64) | DEScan2_1.24.0.tgz |
macOS Binary (arm64) | DEScan2_1.24.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/DEScan2 |
Source Repository (Developer Access) | git clone [email protected]:packages/DEScan2 |
Bioc Package Browser | https://code.bioconductor.org/browse/DEScan2/ |
Package Short Url | https://bioconductor.org/packages/DEScan2/ |
Package Downloads Report | Download Stats |