CNT-ILP specifications

Unique identifier:
Software type:
Restrictions to use:
Academic or non-commercial use
Programming languages:
Copy-Number Tree Integer-Linear Program
Command line interface
Operating system:
Computer skills:
LEMON Graph library, ILOG CPLEX


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CNT-ILP distribution


CNT-ILP support


  • Benjamin Raphael <>
  • Ron Shamir <>


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Department of Computer Science, Princeton University, Princeton, NJ, USA; Department of Computer Science, Center for Computational Molecular Biology, Brown University, Providence, RI, USA; School of Computer Science, Tel Aviv University, Tel Aviv, Israel; Dipartimento di Informatica Sistemistica e Comunicazione (DISCo), Univ. degli Studi di Milano-Bicocca, Milan, Italy

Funding source(s)

Supported by a National Science Foundation CAREER Award CCF1053753, NIH RO1HG005690 a Career Award at the Scientifc Interface from the Burroughs Wellcome Fund, and an Alfred P Sloan Research Fellowship; by the Israeli Science Foundation (Grant 317/13) and the Dotan Hemato-Oncology Research Center at Tel Aviv University; by fellowships from the Edmond J. Safra Center for Bioinformatics at Tel Aviv University and from the Israeli Center of Research Excellence (I-CORE) Gene Regulation in Complex Human Disease (Center No 41/11); by a fellowship from the I-CORE in Algorithms and the Simons Institute for the Theory of Computing in Berkeley and by the Postdoctoral Fellowship for Women of Israel’s Council for Higher Education.

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