CSSQ

DOI: 10.18129/B9.bioc.CSSQ    

Chip-seq Signal Quantifier Pipeline

Bioconductor version: Release (3.11)

This package is desgined to perform statistical analysis to identify statistically significant differentially bound regions between multiple groups of ChIP-seq dataset.

Author: Ashwath Kumar [aut, cre]

Maintainer: Ashwath Kumar <akumar301 at gatech.edu>

Citation (from within R, enter citation("CSSQ")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("CSSQ")

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("CSSQ")

 

HTML R Script Introduction to CSSQ
PDF   Reference Manual

Details

biocViews ChIPSeq, DifferentialPeakCalling, Normalization, Sequencing, Software
Version 1.0.0
In Bioconductor since BioC 3.11 (R-4.0) (< 6 months)
License Artistic-2.0
Depends SummarizedExperiment, GenomicRanges, IRanges, S4Vectors, rtracklayer
Imports GenomicAlignments, GenomicFeatures, Rsamtools, ggplot2, grDevices, stats, utils
LinkingTo
Suggests BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package CSSQ_1.0.0.tar.gz
Windows Binary CSSQ_1.0.0.zip
macOS 10.13 (High Sierra) CSSQ_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CSSQ
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CSSQ
Package Short Url https://bioconductor.org/packages/CSSQ/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.11 Source Archive

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