BACOM2.0 (Bayesian Analysis of COpy number Mixtures) is an improved version of BACOM (see links) package that contains a pipeline for copy number variation (CNV) analysis in heterogeneous cancer cell sample data. BACOM also estimates deletions and tissue contamination. The main improvement consists of an enhanced allele-specific normalization method.
Alternative name: bacomR (an R interface for BACOM Java version).
Note: BACOM2.0 requires original BACOM program (download) to read and process raw SNP array data (.CEL files). See links below.
Genetics; Oncology; Statistics and probability; Genetic variation
Fu Y, Yu G, Levine DA, Wang N, Shih IeM, Zhang Z, Clarke R, Wang Y "BACOM2.0 facilitates absolute normalization and quantification of somatic copy number alterations in heterogeneous tumor." Sci Rep. 2015 Sep 9;5:13955. https://doi.org/10.1038/srep13955
PMID: 26350498
PMCID: PMC4563570
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