BitPhylogeny statistics

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Citations per year

Number of citations per year for the bioinformatics software tool BitPhylogeny

Tool usage distribution map

This map represents all the scientific publications referring to BitPhylogeny per scientific context
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Associated diseases


Popular tool citations

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BitPhylogeny specifications


Unique identifier OMICS_12088
Name BitPhylogeny
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python, R
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Numpy, Scipy, SciKit-learn, rpy2, Pandas, h5py, Python-igraph, rPython, mcclust, e1071, igraph, gplots, riverplot, plyr
Maintained Yes




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  • person_outline Niko Beerenwinkel

Publication for BitPhylogeny

BitPhylogeny citations


Computational Methods for Characterizing Cancer Mutational Heterogeneity

Front Genet
PMCID: 5469877
PMID: 28659971
DOI: 10.3389/fgene.2017.00083

[…] en uses a network to represent VAFs constraints imposed by the evolutionary process. It then identifies an evolutionary model by looking for the spanning tree that best supports the cluster VAF data. BitPhylogeny (Yuan et al., ) provides a probabilistic framework that allows the joint inference of the number and composition of clones in a tumor, as well as the most probable tree representing their […]


Advances in understanding tumour evolution through single cell sequencing*

Biochim Biophys Acta
PMCID: 5813714
PMID: 28193548
DOI: 10.1016/j.bbcan.2017.02.001

[…] build on models allowing (and penalising) a single recurrence , allowing the loss of mutations , or with substitution models allowing arbitrary recurrence and loss as in  and the methylation model of BitPhylogeny . Alternatively phylogenetic clustering approaches which do not need to enforce the infinite sites, like , can be further explored. Important when relaxing the infinite sites assumption w […]

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BitPhylogeny institution(s)
University of Cambridge, Cancer Research UK Cambridge Institute, Cambridge, UK; Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland; SIB Swiss Institute of Bioinformatics, Basel, Switzerland

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