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construction of subclonal structure and clonal phylogenetic trees

Dear Dr. Zhang,
I've read your paper Mapping the spreading routes of lymphatic metastases in human colorectal cancer . It was a fascinating read.
The parts of Cancer cell fraction analysis and construction of subclonal structure and clonal phylogenetic trees are especially inspiring. I would to learn more about these parts but could not find relevant codes in this github. So would you please upload relevant codes for this part? Thanks so much for you help.

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