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CNprep (version 2.0)

Pre-process DNA Copy Number (CN) Data for Detection of CN Events

Description

This package evaluates DNA copy number data, using both their initial form (copy number as a noisy function of genomic position) and their approximation by a piecewise-constant function (segmentation), for the purpose of identifying genomic regions where the copy number differs from the norm.

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Version

Install

install.packages('CNprep')

Monthly Downloads

224

Version

2.0

License

GPL-2

Maintainer

Guoli Sun

Last Published

December 31st, 2014

Functions in CNprep (2.0)

annotexample

Annotation table for ROMA CGH platform and human genome version 17.
makeCNPmask

Given a set of copy-number events, create a DNA copy-number mask
cnpexample

Example of a boundary positions table.
applyCNPmask

Apply a mask to a table of copy number events.
CNpreprocessing

Pre-process DNA copy number (CN) data for detection of CN events.
normsegs

A reference set of segments
segexample

Example of a segmented copy number table.
ratexample

Example of copy number log ratio data