mosaics

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see mosaics.

MOSAiCS (MOdel-based one and two Sample Analysis and Inference for ChIP-Seq)

Bioconductor version: 3.21

This package provides functions for fitting MOSAiCS and MOSAiCS-HMM, a statistical framework to analyze one-sample or two-sample ChIP-seq data of transcription factor binding and histone modification.

Author: Dongjun Chung, Pei Fen Kuan, Rene Welch, Sunduz Keles

Maintainer: Dongjun Chung <dongjun.chung at gmail.com>

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

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("mosaics")

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("mosaics")

MOSAiCS PDF R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Bioinformatics, ChIPseq, Genetics, Sequencing, Software, Transcription

Version 2.46.0

In Bioconductor since BioC 2.8 (R-2.13) (14.5 years)

License GPL (>= 2)

Depends R (>= 3.0.0), methods, graphics, Rcpp

Imports MASS, splines, lattice, IRanges, GenomicRanges, GenomicAlignments, Rsamtools, GenomeInfoDb, S4Vectors

System Requirements Perl

URL http://groups.google.com/group/mosaics_user_group

Suggests mosaicsExample

Linking To Rcpp

Enhances parallel

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 mosaics_2.46.0.tar.gz

Windows Binary (x86_64) mosaics_2.46.0.zip (64-bit only)

macOS Binary (x86_64) mosaics_2.46.0.tgz

macOS Binary (arm64) mosaics_2.46.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/mosaics

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/mosaics

Bioc Package Browser https://code.bioconductor.org/browse/mosaics/

Package Short Url https://bioconductor.org/packages/mosaics/

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