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ChIPsim

This is the development version of ChIPsim; for the stable release version, see ChIPsim.

Simulation of ChIP-seq experiments


Bioconductor version: Development (3.19)

A general framework for the simulation of ChIP-seq data. Although currently focused on nucleosome positioning the package is designed to support different types of experiments.

Author: Peter Humburg

Maintainer: Peter Humburg <Peter.Humburg at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("ChIPsim")

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("ChIPsim")
Simulating ChIP-seq experiments PDF R Script
Reference Manual PDF

Details

biocViews ChIPSeq, Infrastructure, Software
Version 1.57.0
In Bioconductor since BioC 2.5 (R-2.10) (14.5 years)
License GPL (>= 2)
Depends Biostrings(>= 2.29.2)
Imports IRanges, XVector, Biostrings, ShortRead, graphics, methods, stats, utils
System Requirements
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Package Archives

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

Source Package ChIPsim_1.57.0.tar.gz
Windows Binary ChIPsim_1.57.0.zip (64-bit only)
macOS Binary (x86_64) ChIPsim_1.57.0.tgz
macOS Binary (arm64) ChIPsim_1.57.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ChIPsim
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ChIPsim
Bioc Package Browser https://code.bioconductor.org/browse/ChIPsim/
Package Short Url https://bioconductor.org/packages/ChIPsim/
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