CHAT is a collection of methods developed for researchers in the field of cancer genomics to study the intra-heterogeneity of tumors. It is applied on both high-density SNP array data and next generation sequencing data. CHAT estimates tumor purity, ploidy on the genome-wide level. It can also assign each somatic CNA or mutation its fraction of cancer cell carriers, namely, sAGP or CCF.
Arguments
Details
Package:
CHAT
Type:
Package
Version:
1.0
Date:
2014-02-10
License:
GPL(>=2)
References
Li et al., Genomic estimates of aneuploid content in Glioblastoma Multiforme and imporved classification. _Clinical Cancer Research_, 2012.
Li et al., A general framework for characterizing tumor subclonality using DNA sequencing and SNP array data. 2014. Submitted to Genome Biology.