PurBayes statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Tumor purity and heterogeneity estimation chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

PurBayes specifications

Information


Unique identifier OMICS_03561
Name PurBayes
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The tumor tissue read counts (N and Y) for a set of high-confidence SNVs.
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.3
Stability Stable
Requirements
rjags
Source code URL https://cran.r-project.org/src/contrib/PurBayes_1.3.tar.gz
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Nicholas B. Larson <>

Publication for PurBayes

PurBayes in publications

 (3)
PMCID: 5748486
PMID: 29130628
DOI: 10.1002/1878-0261.12156

[…] frequencies (afs) were calculated using samtools mpileup. copy number alterations (cnas) and allelic imbalance were estimated using facets (shen and seshan, ). tumor purity was estimated using purbayes (larson and fridley, ) and sequenza (favero et al., ). tumor drivers and potentially druggable targets were identified using the intogen catalog of cancer drivers, available for download […]

PMCID: 4687867
PMID: 26695660
DOI: 10.1371/journal.pone.0145176

[…] a few samples were re-centered so that chromosome 2 had the same copy number. a threshold of |log2r| > 0.5 was used to call a region as amplified or deleted. tumor purity was estimated using purbayes, with some modifications (1). specifically, we modified purbayes to simultaneously identify subclones and estimate purity for each subclone across multiple sequential time points. […]

PMCID: 4587544
PMID: 25822088
DOI: 10.1038/ng.3252

[…] according to the clinical, pathological and genetic features as previously described by guichard et al. (, ). in all hcc samples, the ratio of tumor cells/non-tumor cells was evaluated >50%; the purbayes method estimated an average 70% (range 39-100%) of tumor purity based upon sequencing data (). definition of dmn, early, small and progressed, classic, and poor prognosis hcc is based […]


To access a full list of publications, you will need to upgrade to our premium service.

PurBayes institution(s)
Division of Biomedical Statistics and Informatics, Department of Health Sciences Research, Mayo Clinic, Rochester, MN, USA; Department of Biostatistics, University of Kansas Medical Center, Kansas City, KS, USA
PurBayes funding source(s)
Supported by the Mayo Foundation and the US National Institute of Health (R21 GM86689; P30 CA168524; P20 GM103418).

PurBayes review

star_border star_border star_border star_border star_border
star star star star star
Calvi. C.'s avatar image

Calvi. C.

star_border star_border star_border star_border star_border
star star star star star
Desktop
Great, works.