Modeling the Clonal Evolution of Cancer from Next Generation Sequencing Data

We are withdrawing this manuscript as a courtesy to the developers of the PyClone model. Although applications of PyClone have been published, the model was not described in a complete form in any published work and we reconstructed the precise specification of the model through unpublished work available through their websites and through our discussions with the authors. They asked us to withdraw our manuscript from arXiv so that it did not constitute the first publication of their complete method. We are happy to comply -- we were not aware that our manuscript would create difficulties for them and we have no desire to interfere with the publication of PyClone which we feel is an excellent method that makes a substantial contribution. We note that our tree-structured model, described in this manuscript, was developed independently by us based on the PyClone model and that our withdrawal of this manuscript should not be taken as indication that there are problems with our model or other problems with the manuscript.