mcmc


A pre-selected set of parameters required to run <code>DPdensity()</code>


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.

Bo Li

CHAT

Clonal Heterogeneity Analysis Tool

mcmc function

The format is:
List of 4
 $ nburn   : num 10000
 $ nskip   : num 4
 $ ndisplay: num 100
 $ nsave   : num 1000

mcmc: MCMC parameters.

Description

Usage

Arguments

Format