CopyMap is a tool for detection of copy number variation (CNV) and allele frequencies in oligo-hybridization and CGH data. The CopyMap algorithm uses a time-dependent hidden Markov model (HMM) to consolidate data of copy number variants (CNVs) across various carriers.
Zollner S "CopyMap: localization and calling of copy number variation by joint analysis of hybridization data from multiple individuals." Bioinformatics. 2010 Nov 1;26(21):2776-7. Epub 2010 Oct 5. https://doi.org/10.1093/bioinformatics/btq515
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