VarWalker statistics

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Associated diseases

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VarWalker specifications

Information


Unique identifier OMICS_12293
Name VarWalker
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages R
Computer skills Advanced
Version 1.0
Maintained Yes

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Maintainer


  • person_outline Zhongming Zhao <>

Publication for VarWalker

VarWalker in publications

 (3)
PMCID: 5700962
PMID: 29170526
DOI: 10.1038/s41598-017-16286-5

[…] they are long. in order to filter those long but non-qualified genes (genes which have mutations only because they are long yet they are not driver mutations) we adopted the filtering strategies of varwalker and computed a probability weight vector (pwv) by formulating a generalized additive model and estimated a relative mutation rate for each gene. the vector of x represents the gene length […]

PMCID: 5522276
PMID: 28402931
DOI: 10.18632/oncotarget.16639

[…] additional patient cases and larger ppi network, we could use additional tools that combine mutation data (such as hotnet []) or arbitrary omics data (e.g., keypathwayminer [], nbs [], muffin [], varwalker []) with signaling networks., in conclusion, no co-segregation of the habp2 p.g534e was found in three families with nmtc and breast cancer. the variant is not significantly associated […]

PMCID: 5274523
PMID: 28149674
DOI: 10.7717/peerj.2568

[…] were both developed using the r environment, which provides powerful data analysis and graphical features. drivernet met the standards set by bioconductor (). we combined graphs from drivernet (), varwalker (), and dawnrank () for our analyses., drivernet uses a greedy algorithm to identify driver genes from a bipartite graph combining mutation frequency and differential expression. […]


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VarWalker institution(s)
Department of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN, USA; Center for Quantitative Sciences, Vanderbilt University Medical Center, Nashville, TN, USA; Department of Cancer Biology, Vanderbilt University School of Medicine, Nashville, TN, USA; Department of Psychiatry, Vanderbilt University School of Medicine, Nashville, TN, USA
VarWalker funding source(s)
This work was partially supported by National Institutes of Health grants (R01LM011177, R03CA167695, P30CA68485, and P50CA095103), the Robert J. Kleberg, Jr. and Helen C. Kleberg Foundation, and Ingram Professorship Funds.

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