CODEX: A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing
Version 1.8.0

A normalization and copy number variation calling procedure for whole exome DNA sequencing data. CODEX relies on the availability of multiple samples processed using the same sequencing pipeline for normalization, and does not require matched controls. The normalization model in CODEX includes terms that specifically remove biases due to GC content, exon length and targeting and amplification efficiency, and latent systemic artifacts. CODEX also includes a Poisson likelihood-based recursive segmentation procedure that explicitly models the count-based exome sequencing data.

Package details

AuthorYuchao Jiang, Nancy R. Zhang
Bioconductor views CopyNumberVariation ExomeSeq Normalization QualityControl
MaintainerYuchao Jiang <[email protected]>
LicenseGPL-2
Version1.8.0
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("CODEX")

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CODEX documentation built on May 31, 2017, 3:09 p.m.