Dear J Zhang, I'm a PhD student. I was looking for a package that provides functions to identify minimum common genomic regions of interests based on segmented copy number data from multiple samples. I've found yours could be very useful for me. Your Manual shows how to generate the segment data based on raw data using DNAcopy package, and then, use these segment data (as a DNAcopy class object) as the input to the cghMCR function. My problem is I've generated the segment list using other method. This segment list has the same parameters than the segment list you use as example (called "segData") but it is a data frame object, not a DNAcopy object like "segData". How could I apply cghMCR and MCR functions using my R data frame? There is some method to get a DNAcopy class object from my segment list? Thanks Luz G Alonso lgarcia at cipf.es PhD Student Bioinformatics and Genomics Department Centro de Investigaciones Principe Felipe Avda. Autopista Saler 16, 46012 Valencia, Spain Phone: +34 96 328 96 80 Fax: +34 96 328 97 01 http://bioinfo.cipf.es/