HMM-Dosage (HMM for Detection of Somatic And Germline Events) is a software that can analyze SNP-genotyping data of tumours to predict both somatic and germline copy number changes.
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C. Curtis, et al.
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups.
Nature 486, 346–352 (21 June 2012)