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Bioconductor - Clomial (development version)

Clomial

This is the development version of Clomial; for the stable release version, see Clomial.

Infers clonal composition of a tumor

Bioconductor version: Development (3.22)

Clomial fits binomial distributions to counts obtained from Next Gen Sequencing data of multiple samples of the same tumor. The trained parameters can be interpreted to infer the clonal structure of the tumor.

Author: Habil Zare and Alex Hu

Maintainer: Habil Zare <zare at u.washington.edu>

Citation (from within R, enter citation("Clomial")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("Clomial")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Clomial")
A likelihood maximization approach to infer the clonal structure of a cancer using multiple tumor samples PDF R Script Reference Manual PDF NEWS Text Details biocViews Bayesian, Clustering, DNASeq, ExomeSeq, GeneticVariability, Genetics, ImmunoOncology, MultipleComparison, Sequencing, Software, TargetedResequencing Version 1.45.0 In Bioconductor since BioC 2.14 (R-3.1) (11 years) License GPL (>= 2) Depends R (>= 2.10), matrixStats Imports methods, permute System Requirements URL See More Suggests Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package Archives

Follow Installation instructions to use this package in your R session.

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