ChIPsim

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

Simulation of ChIP-seq experiments

Platform availability badge Ranking badge Support activity badge Years in BioConductor badge Build results badge Last commit badge Dependency count badge

DOI: 10.18129/B9.bioc.ChIPsim

Bioconductor version: Development (3.23)

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 "4.6") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews ChIPSeq, Infrastructure, Software

Version 1.65.0

In Bioconductor since BioC 2.5 (R-2.10) (16 years)

License GPL (>= 2)

Depends Biostrings(>= 2.29.2)

Imports IRanges, XVector, Biostrings, ShortRead, graphics, methods, stats, utils

System Requirements

URL

Suggests actuar, zoo

Linking To

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 ChIPsim_1.65.0.tar.gz

Windows Binary (x86_64) ChIPsim_1.65.0.zip

macOS Binary (x86_64)

macOS Binary (arm64)

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/

Package Downloads Report Download Stats