ChIPsim-package: Simulation of ChIP-seq experiments

Description Details Author(s) References See Also Examples

Description

This package provides a framework for the simulation of ChIP-seq experiments. An implementation of a simulation for nucleosome positioning experiments is provided as part of the package. Simulations for other experiments can be implemented using the provided framework.

Details

Package: ChIPsim
Type: Package
Version: 1.3.1
Date: 2010-07-30
License: GPL (>= 2)
LazyLoad: yes
Depends: Biostrings
Imports: IRanges, ShortRead
Suggests: actuar, zoo

Function simChIP is the main driver of the simulation. To simulate different types of experiments the functions passed to the functions argument of simChIP have to be replaced. See the vignettes for more detail.

Author(s)

Peter Humburg

Maintainer: Peter Humburg <[email protected]>

References

~~ Literature or other references for background information ~~

See Also

ShortRead and its dependencies are used to handle short read and genomic sequences.

Examples

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## See the accompanying vignette 'Introduction to ChIPsim' for a detailed 
## example of how to use this package for nucleosome positioning simulations. 
## A guide for the writing of extensions that cover other types of
## experiments is provided in 'Extending ChIPsim'.

ChIPsim documentation built on May 2, 2018, 2:40 a.m.