Clomial specifications

Information


Unique identifier OMICS_07696
Name Clomial
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.16.0
Stability Stable
Requirements
methods, R(>=2.10), permute, matrixStats
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Habil Zare

Publication for Clomial

Clomial citations

 (2)
library_books

Engineered in vitro cell line mixtures and robust evaluation of computational methods for clonal decomposition and longitudinal dynamics in cancer

2017
Sci Rep
PMCID: 5647443
PMID: 29044127
DOI: 10.1038/s41598-017-13338-8

[…] PyClone 0.13.0 available from http://compbio.bccrc.ca/software/pyclone.Clomial 1.3.0 available at R-bioconductor.SciClone available from https://github.com/genome/sciclone.PhyloWGS available from https://github.com/morrislab/phylowgs. […]

library_books

Enhancing cancer clonality analysis with integrative genomics

2015
BMC Bioinformatics
PMCID: 4597064
PMID: 26424171
DOI: 10.1186/1471-2105-16-S13-S7

[…] es), constructs a phylogenetic tree--describing the evolution of clones within the tumor. The problem is modeled, and solutions based mathematically, on the deconvolution of a single aggregate signal.Clomial [] is another method used to infer subclonal structure using a binomial expectation maximization based approach (via somatic variant allele frequencies), and was specifically designed to deal […]

Clomial institution(s)
Department of Genome Sciences, University of Washington, Seattle, WA, USA; Division of Hematology, Department of Medicine, University of Washington, Seattle, WA, USA; Department of Biostatistics, University of Washington, Seattle, WA, USA; Department of Computer Science and Engineering, University of Washington, Seattle, WA, USA

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