hello, Im using CNVkit on amplicon sequencing with ion torrent. we don't have normal samples. and antitargets are not really helpfull in our situation, i have big insertion and no deletion in results . Is cnvkit still usefull? Can we use cnvkit without antitarget ?
call command gives as a new element cn , what does it represent in real ? and why do I have cn cn1 cn2 in my results ? thank you so much for your help