Clomial
Infers clonal composition of a tumor
Bioconductor version: Release (3.19)
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 "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Bayesian, Clustering, DNASeq, ExomeSeq, GeneticVariability, Genetics, ImmunoOncology, MultipleComparison, Sequencing, Software, TargetedResequencing |
| Version | 1.40.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (10.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), matrixStats |
| Imports | methods, permute |
| System Requirements | |
| URL |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Clomial_1.40.0.tar.gz |
| Windows Binary (x86_64) | Clomial_1.40.0.zip |
| macOS Binary (x86_64) | Clomial_1.40.0.tgz |
| macOS Binary (arm64) | Clomial_1.40.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Clomial |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Clomial |
| Bioc Package Browser | https://code.bioconductor.org/browse/Clomial/ |
| Package Short Url | https://bioconductor.org/packages/Clomial/ |
| Package Downloads Report | Download Stats |