Shicheng-Guo/CHAT: Clonal Heterogeneity Analysis Tool
CHAT is a collection of tools developed for tumor subclonality analysis using high density DNA SNP array data and sequencing data. The pipeline consists of four major compartments: 1) tumor aneuploid genome proportion (AGP) calculation and ploidy estimation. 2) segment-specific AGP calculation and absolute copy number estimation for somatic CNAs. 3) cancer cell fraction correction for somatic SNVs in clonal or subclonal sCNA regions. 4) number of subclones estimation using Dirichlet process prior followed by MCMC approach.
Getting started
Browse package contents
Package details |
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| Author | Bo Li |
| Maintainer | Bo Li <libo@umich.edu> |
| License | GPL (>= 2) |
| Version | 1.1 |
| URL | http://sourceforge.net/p/clonalhetanalysistool/wiki/CHAT/ |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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